genome.fa.s8290.2.7.7.80.10.50.1000.2.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: VEPZ01008290.1 Hibiscus syriacus cultivar Beakdansim tig00110954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1890093

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 972 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)
433302--433350	19	2.6	19	93	0	80	57	10	2	30	1.43
435139--435203	32	2.0	33	87	3	96	23	47	0	29	1.52
435236--435300	21	3.1	21	79	0	76	16	30	13	38	1.88
435383--435414	15	2.1	15	94	0	55	9	62	9	18	1.52
437685--437731	20	2.3	20	89	10	78	17	17	10	55	1.69
437477--437942	181	2.6	179	86	4	638	25	17	14	42	1.87
443962--443990	14	2.1	14	100	0	58	44	6	20	27	1.77
446730--446762	17	1.9	17	88	11	50	18	9	21	51	1.73
449970--450021	24	2.2	24	89	0	77	36	1	0	61	1.07
452832--452871	21	2.0	21	90	5	64	40	10	22	27	1.86
452957--453018	20	3.0	20	80	2	61	32	27	16	24	1.96
456403--456491	29	3.1	29	80	6	90	48	7	17	25	1.75
458267--458355	44	2.0	44	100	0	178	55	15	8	20	1.67
459365--459403	20	2.0	20	90	5	62	58	5	0	35	1.20
460188--460223	2	18.0	2	88	0	54	0	44	2	52	1.15
460188--460225	14	2.7	14	91	0	67	0	42	5	52	1.24
471242--471316	38	2.0	37	84	5	98	48	4	1	46	1.29
475101--475149	22	2.2	22	82	13	64	40	10	8	40	1.69
475103--475149	23	2.0	23	88	8	69	42	10	6	40	1.65
478382--479341	324	3.0	324	93	1	1593	36	13	25	24	1.92
479875--479909	17	2.1	17	94	0	61	40	11	11	37	1.77
485557--485599	11	3.7	11	81	6	50	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485498--485730	124	1.9	125	84	8	321	45	3	3	48	1.34
485646--485701	27	2.2	26	84	9	80	41	3	0	55	1.17
491726--491772	15	3.1	15	84	0	67	14	34	17	34	1.90
493661--493882	111	2.0	111	94	0	390	45	10	8	36	1.68
493997--494038	10	4.2	10	88	11	68	42	0	28	28	1.56
503487--503542	27	2.1	27	100	0	112	37	7	48	7	1.58
509279--509346	20	3.4	20	66	8	57	39	11	14	33	1.83
509976--510044	24	2.9	24	86	0	84	57	20	13	8	1.61
510145--510187	17	2.6	17	82	13	54	39	0	16	44	1.48
512279--512316	15	2.4	16	82	13	51	28	15	18	36	1.92
516059--516093	2	17.5	2	100	0	70	48	0	0	51	1.00
517927--518024	44	2.2	44	98	0	187	48	19	2	29	1.60
520235--520259	10	2.5	10	100	0	50	68	0	0	32	0.90
527172--527234	30	2.1	30	85	2	83	44	7	15	31	1.76
529633--529734	17	5.8	18	75	6	95	38	10	11	39	1.77
529633--529734	34	2.9	35	81	8	120	38	10	11	39	1.77
535009--535081	20	3.7	20	85	5	87	27	24	19	28	1.98
535068--535123	21	2.7	21	80	0	67	26	19	19	33	1.96
535028--535142	20	5.7	20	74	8	88	27	22	20	29	1.98
535327--535364	17	2.2	17	95	0	67	31	34	5	28	1.80
536012--536059	24	2.0	25	91	4	80	27	20	16	35	1.94
536017--536064	24	1.9	25	87	8	71	25	20	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538425--538971	140	3.9	140	97	0	1028	28	13	14	42	1.84
538949--539120	20	9.2	20	73	17	122	35	23	16	24	1.95
538949--539086	54	2.6	54	91	2	215	36	25	16	21	1.94
538986--539120	40	3.5	40	79	11	165	34	22	17	25	1.96
538994--539175	94	1.9	93	84	5	242	34	20	18	26	1.95
539355--539380	13	2.0	13	100	0	52	61	15	0	23	1.33
540735--540857	42	2.9	42	79	7	142	23	18	36	21	1.95
540735--540848	21	5.4	21	73	4	95	21	19	36	21	1.95
541338--541415	33	2.3	34	84	2	113	48	23	15	12	1.79
541361--541421	14	4.0	14	73	19	50	50	21	14	13	1.76
541427--541464	20	1.9	20	88	0	58	15	21	15	47	1.82
541431--541506	33	2.3	33	84	6	91	15	18	18	47	1.83
541499--541659	20	8.4	19	76	15	145	18	18	24	39	1.92
541458--541660	93	2.2	93	95	0	361	17	18	22	41	1.90
542205--542240	18	1.9	19	88	5	56	13	11	44	30	1.79
543553--543603	20	2.5	20	93	0	84	50	23	13	11	1.74
544007--544057	22	2.3	22	93	0	93	19	11	47	21	1.81
544202--544354	20	7.7	20	77	10	136	26	18	22	32	1.97
544224--544354	41	3.3	40	86	8	171	26	19	22	31	1.98
544202--544315	59	1.9	60	90	3	185	26	17	22	33	1.96
544369--544414	19	2.4	19	85	3	56	21	17	30	30	1.96
544380--544416	19	1.9	19	94	0	65	21	16	29	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546132--546250	6	19.8	6	84	0	76	3	23	24	48	1.66
546132--546250	36	3.3	36	74	0	112	3	23	24	48	1.66
549716--549764	21	2.3	22	82	10	66	46	6	6	40	1.53
549795--549849	17	3.1	17	70	10	56	45	7	7	40	1.60
549884--549950	22	3.1	22	75	14	52	49	5	2	41	1.42
551581--552235	113	5.8	112	91	2	994	31	16	22	29	1.96
551581--552238	225	2.9	223	90	3	1009	31	16	22	29	1.96
556977--557025	4	11.5	4	80	20	55	69	0	4	26	1.06
556977--557025	18	2.9	17	82	14	57	69	0	4	26	1.06
564937--564985	21	2.3	22	79	10	57	46	4	6	42	1.47
566988--567022	15	2.2	16	90	5	54	14	0	22	62	1.31
567173--567238	33	2.0	33	96	0	123	28	13	15	42	1.85
567582--567623	21	2.0	21	85	0	57	28	7	40	23	1.81
568984--569041	20	2.9	21	80	12	59	27	18	15	37	1.92
568997--569041	20	2.2	20	88	0	63	28	17	17	35	1.93
569029--569100	20	3.6	20	96	0	126	26	18	20	34	1.95
569012--569100	40	2.2	40	84	4	108	26	19	20	33	1.96
575008--575056	2	25.5	2	91	8	84	48	0	0	51	1.00
576491--576549	11	5.4	11	76	13	50	40	3	8	47	1.51
576546--576623	38	2.1	38	90	0	120	28	5	8	57	1.50
576595--576723	16	8.1	16	78	3	116	31	7	5	55	1.51
576595--576723	48	2.7	48	78	4	143	31	7	5	55	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576931--577017	40	2.2	40	91	0	138	45	24	6	22	1.76
577619--577661	19	2.3	19	83	0	50	39	27	6	25	1.81
580638--580682	23	1.9	24	81	4	56	22	8	8	60	1.55
581401--581474	34	2.2	34	90	0	121	33	14	16	35	1.89
582751--582785	18	1.9	18	88	0	52	28	37	11	22	1.89
582828--582889	11	5.5	11	75	11	54	41	3	9	45	1.53
582897--582953	30	1.9	30	85	0	78	31	7	5	56	1.49
588681--588746	28	2.3	30	78	19	79	50	0	1	48	1.10
589684--589724	21	2.0	21	85	0	55	56	4	0	39	1.21
590020--590048	15	1.9	15	100	0	58	34	0	10	55	1.34
590042--590073	16	2.0	16	100	0	64	37	0	18	43	1.51
590040--590196	24	6.4	23	76	14	95	44	1	8	45	1.41
590089--590155	27	2.4	27	87	2	89	49	1	4	44	1.31
590149--590199	11	4.5	11	83	9	66	49	1	5	43	1.38
590230--590273	22	2.0	22	95	0	79	43	4	6	45	1.51
590302--590341	17	2.5	15	88	8	53	45	0	2	52	1.14
591064--591111	22	2.2	22	96	0	87	39	8	33	18	1.81
595969--596000	12	2.7	12	95	0	55	0	0	40	59	0.97
596088--596134	15	3.1	15	84	0	67	4	12	61	21	1.48
596118--596171	18	3.0	18	88	0	81	9	11	57	22	1.61
596118--596160	12	3.6	12	80	0	50	9	11	58	20	1.61
596170--596222	18	2.9	18	75	8	54	1	18	28	50	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596224--596395	6	28.7	6	89	0	137	0	13	55	29	1.43
596209--596395	24	7.8	24	85	4	216	0	14	54	31	1.45
596215--596395	30	6.0	30	87	3	224	0	14	54	30	1.44
596242--596395	12	12.8	12	88	2	220	0	14	55	29	1.45
599468--599502	15	2.2	16	90	5	54	14	0	22	62	1.31
600031--600072	21	2.0	21	90	0	66	26	2	42	28	1.67
601478--601531	20	2.7	20	88	0	81	29	22	14	33	1.94
607807--607834	2	14.0	2	100	0	56	50	0	0	50	1.00
608743--608807	33	2.0	33	96	3	123	47	18	9	24	1.77
609344--609402	18	3.4	18	73	17	61	32	6	8	52	1.58

Tables:   1   2   3   4   5   6   7   8   9