genome.fa.s8922.2.7.7.80.10.50.1000.2.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: VEPZ01008922.1 Hibiscus syriacus cultivar Beakdansim tig00112226_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  568381

Tables:   1   2   3   

This is table  2  of  3  ( 249 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)
255229--255253	3	8.3	3	100	0	50	0	36	0	64	0.94
255428--255481	24	2.2	24	90	0	81	40	22	16	20	1.91
255428--255495	24	2.8	24	81	0	64	38	22	16	23	1.93
255607--255640	12	2.8	12	90	0	50	14	0	29	55	1.40
256399--256494	20	4.8	20	71	12	79	28	14	27	30	1.95
263336--263380	20	2.2	20	100	0	90	55	15	4	24	1.59
263890--263934	21	2.1	22	83	4	56	55	2	4	37	1.32
272322--272461	60	2.3	60	85	1	183	40	5	19	35	1.73
272322--272483	60	2.7	59	82	3	182	38	5	22	33	1.77
275709--275740	2	16.0	2	100	0	64	50	0	0	50	1.00
276031--276057	2	13.5	2	100	0	54	0	48	0	51	1.00
285750--285805	21	2.6	23	80	8	64	35	1	8	53	1.43
287477--287533	15	3.9	15	75	13	64	71	0	0	28	0.86
287477--287514	20	1.9	20	88	0	58	76	0	0	23	0.79
288697--288733	20	1.9	19	89	10	58	48	5	21	24	1.71
288884--288959	38	2.0	38	82	7	93	51	3	0	44	1.20
289748--289799	14	3.6	14	73	17	52	32	3	1	61	1.25
294034--294068	2	17.5	2	100	0	70	51	0	0	48	1.00
295801--295861	31	2.0	31	90	0	95	29	9	11	49	1.71
296920--296965	20	2.2	21	84	3	58	60	0	0	39	0.97
308636--308677	17	2.4	18	88	4	59	61	7	0	30	1.22
319404--319443	20	2.1	19	90	4	62	35	7	32	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319688--319722	18	1.9	18	100	0	70	40	0	5	54	1.24
324154--324186	17	1.9	17	88	11	50	63	0	3	33	1.10
325251--325366	60	1.9	60	80	3	135	37	21	2	37	1.67
325513--325628	60	1.9	60	82	3	144	41	6	21	30	1.79
327531--327569	12	3.1	12	82	13	51	61	0	0	38	0.96
327648--327681	17	2.1	15	89	10	50	58	5	5	29	1.45
328826--328963	69	2.0	69	95	2	251	38	12	17	31	1.87
329826--329851	13	2.0	13	100	0	52	46	0	0	53	1.00
331870--331897	6	4.7	6	100	0	56	17	46	0	35	1.49
333801--333857	29	2.0	29	96	0	105	43	15	12	28	1.83
333809--333870	29	2.1	28	82	11	72	40	16	16	27	1.89
338086--338134	2	24.5	2	100	0	98	0	48	0	51	1.00
342993--343022	2	15.0	2	92	0	51	50	3	0	46	1.18
362354--362383	10	3.1	10	90	9	53	16	0	0	83	0.65
364488--364728	121	2.0	120	94	0	419	43	17	18	21	1.88
373336--373374	4	10.0	4	94	5	71	25	0	23	51	1.49
378864--378996	3	43.7	3	89	3	203	33	0	2	63	1.12
379437--379467	1	31.0	1	100	0	62	100	0	0	0	0.00
379740--379768	13	2.2	13	100	0	58	0	31	62	6	1.22
391719--391771	5	10.8	5	79	16	58	83	0	16	0	0.66
391718--391801	6	14.0	6	77	18	86	79	0	16	3	0.86
391713--391800	29	2.9	29	79	16	90	79	0	17	3	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391714--391801	24	3.7	24	82	13	110	79	0	17	3	0.86
391720--391799	35	2.2	37	86	4	110	80	0	16	3	0.86
392741--393139	52	7.7	51	94	2	674	25	14	22	37	1.92
392741--393139	103	3.9	103	95	1	701	25	14	22	37	1.92
392741--393139	154	2.6	155	96	1	730	25	14	22	37	1.92
393696--394378	113	5.9	113	92	1	1015	37	14	20	27	1.92
394677--394794	3	38.7	3	88	3	173	33	0	2	62	1.14
395235--395259	1	25.0	1	100	0	50	100	0	0	0	0.00
395533--395561	13	2.2	13	100	0	58	0	31	62	6	1.22
400671--400697	2	13.5	2	100	0	54	48	0	0	51	1.00
402917--402945	15	1.9	15	100	0	58	44	27	0	27	1.54
405992--406021	14	2.1	14	93	0	51	43	16	6	33	1.74
408846--408890	18	2.5	18	100	0	90	40	8	4	46	1.55
410496--410642	60	2.5	60	77	2	152	36	20	11	31	1.88
411732--411774	21	2.2	20	88	12	63	46	2	0	51	1.13
419566--419622	19	3.1	18	73	16	62	54	1	0	43	1.10
433328--433369	14	3.1	14	83	10	52	4	19	0	76	0.96
433725--433786	17	3.6	16	82	10	52	37	14	8	40	1.76
433744--433796	17	3.1	17	86	0	70	35	15	7	41	1.75
434890--434953	23	2.8	23	100	0	128	32	20	0	46	1.51
435144--435169	10	2.6	10	100	0	52	84	0	0	15	0.62
436646--436675	14	2.1	15	93	6	53	73	6	0	20	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440084--440152	27	2.5	27	84	11	88	57	8	15	17	1.62
440533--440607	3	25.0	3	94	0	132	34	1	0	64	1.02
450169--450210	20	2.0	20	86	4	57	26	16	21	35	1.94
453328--453399	17	4.3	17	84	8	103	83	0	15	1	0.72
453328--453386	12	5.6	10	75	16	57	84	0	13	1	0.69
453339--453398	27	2.2	27	85	8	77	83	0	15	1	0.73
453326--453399	35	2.2	33	90	4	112	82	0	16	1	0.74
453326--453399	33	2.2	35	88	9	109	82	0	16	1	0.74
453712--453756	16	2.8	16	83	10	56	28	8	6	55	1.56
454544--455585	83	12.7	83	95	1	1859	26	13	23	36	1.92
454544--455582	494	2.1	491	95	2	1875	26	13	23	36	1.92
456252--456706	113	4.0	113	96	0	829	38	15	18	27	1.91
457062--457136	3	25.0	3	97	0	141	33	1	0	65	1.01
460443--460618	15	11.3	15	84	8	228	48	0	1	50	1.11
460443--460618	30	5.7	30	87	9	255	48	0	1	50	1.11
460585--460618	14	2.3	15	95	5	61	47	0	0	52	1.00
460623--460667	22	2.1	21	91	4	72	35	0	13	51	1.41
460600--461263	54	12.1	54	82	11	526	34	0	12	52	1.41
460645--460751	32	3.7	32	75	23	135	35	0	13	51	1.41
460677--460719	22	2.0	22	100	0	86	34	0	13	51	1.42
460778--461246	32	15.7	32	71	26	381	34	0	12	52	1.40
460811--460856	22	2.1	22	95	0	83	34	0	13	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460920--460962	22	2.0	22	95	0	77	37	0	11	51	1.39
461063--461115	14	3.5	14	72	18	52	37	0	5	56	1.23
461077--461133	18	3.4	18	72	18	68	35	0	10	54	1.35
461118--461160	22	2.0	22	95	0	77	37	0	11	51	1.39
461172--461214	22	2.0	22	100	0	86	34	0	13	51	1.42
461230--461345	22	4.7	23	71	17	83	35	0	12	52	1.39
461194--461340	77	1.9	79	91	4	244	34	0	12	53	1.40
461370--461428	31	1.9	31	92	0	100	44	8	5	42	1.57
465543--465599	19	3.0	19	79	5	62	36	15	10	36	1.82
469685--469770	23	3.7	23	84	3	102	31	26	26	15	1.95
469698--469794	46	2.1	46	84	3	124	31	24	25	17	1.97
470476--470525	20	2.5	20	90	6	75	18	26	20	36	1.95
470980--471012	16	1.9	18	88	11	52	21	12	6	60	1.53
472879--472908	15	2.0	15	93	0	51	36	20	10	33	1.86
478850--478896	22	2.1	23	88	4	69	23	12	25	38	1.90
483017--483051	3	12.0	3	93	6	63	34	0	0	65	0.93
483017--483054	14	2.6	14	95	4	67	34	0	0	65	0.93
485495--485520	2	13.0	2	100	0	52	50	0	0	50	1.00
509854--509911	30	2.0	29	82	3	71	37	8	3	50	1.50
511035--511108	38	1.9	38	91	0	121	28	10	18	41	1.84
512998--513088	31	2.9	31	85	6	123	34	19	18	27	1.96
523309--523957	130	5.0	130	99	0	1289	33	16	18	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528072--528109	19	2.0	19	94	0	67	65	0	0	34	0.93
528720--528760	15	2.7	15	80	0	55	39	0	58	2	1.11
529173--529217	24	1.9	24	81	4	56	35	11	8	44	1.71
537255--537332	3	26.3	3	84	2	86	39	0	60	0	0.97
537307--537659	9	39.6	9	75	11	271	56	1	41	1	1.15
537266--537659	6	65.3	6	75	12	200	54	1	43	1	1.15
537895--538278	3	130.0	3	77	14	354	60	0	37	1	1.10
548763--548831	29	2.4	29	87	0	93	34	7	24	33	1.83
550861--551227	179	2.0	180	92	3	603	27	13	23	34	1.93
551043--551540	216	2.3	216	83	8	636	26	12	26	34	1.92

Tables:   1   2   3