genome.fa.s9072.2.7.7.80.10.50.1000.3.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: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2600608

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

This is table  3  of  13  ( 1560 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)
434194--434232	18	2.2	18	95	0	69	56	2	38	2	1.27
435787--435835	19	2.6	19	96	0	89	32	2	10	55	1.45
436185--437947	200	8.8	199	82	5	1780	37	14	15	32	1.87
436186--437947	601	2.9	592	83	6	2024	37	14	15	32	1.87
436185--437893	801	2.1	799	84	5	2188	38	14	15	32	1.87
437837--437875	20	2.0	20	84	0	51	41	7	15	35	1.76
442230--443048	201	4.1	198	80	8	813	40	14	14	31	1.85
442227--442995	400	1.9	401	82	6	970	40	14	14	31	1.86
443126--443199	23	3.2	23	90	0	112	39	17	5	37	1.73
443043--443263	110	2.0	109	88	0	325	35	14	8	41	1.76
443509--443538	6	5.0	6	100	0	60	0	33	0	66	0.92
444757--444806	17	3.1	17	68	26	54	52	22	6	20	1.68
445024--445061	20	1.9	20	89	10	60	28	10	2	57	1.45
446096--446144	2	26.5	2	84	15	70	48	0	0	51	1.00
446087--446144	23	2.5	24	86	8	77	46	0	1	51	1.11
446096--446147	16	3.5	15	87	12	81	48	0	0	51	1.00
447173--447245	20	3.6	21	75	12	55	32	5	1	60	1.28
447229--447304	14	6.2	12	73	18	68	22	7	1	68	1.23
447251--447304	22	2.4	22	90	3	81	24	7	1	66	1.27
447265--447311	22	2.1	21	92	4	58	31	4	0	63	1.13
447391--447514	52	2.3	52	78	15	121	20	5	4	69	1.26
450791--450875	32	2.7	30	79	15	91	76	4	15	3	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451915--451978	33	1.9	34	90	3	103	29	12	21	35	1.91
452790--452908	35	3.5	35	73	13	131	35	26	14	23	1.93
452825--452930	31	3.3	31	70	14	97	33	28	14	24	1.94
452788--452930	66	2.2	66	98	0	277	32	27	13	25	1.94
453304--453410	36	2.9	36	83	1	124	22	20	15	41	1.90
453336--453510	94	1.9	93	96	1	323	26	19	12	41	1.86
453426--453491	21	3.5	20	67	25	61	24	18	16	40	1.90
453428--453509	36	2.2	36	93	2	137	26	19	13	40	1.89
453519--453674	36	4.4	36	83	3	190	24	20	14	40	1.90
453729--453817	36	2.5	36	89	7	130	41	17	8	31	1.81
455482--455509	2	14.0	2	100	0	56	50	0	0	50	1.00
455695--455772	26	3.0	27	78	16	67	23	2	2	71	1.10
455688--455744	13	4.3	14	75	16	50	22	1	3	71	1.10
455709--455792	25	3.9	20	73	22	64	19	3	2	75	1.07
456837--456911	9	8.2	10	88	11	85	37	0	0	62	0.95
456853--456911	3	20.0	3	92	3	102	35	0	0	64	0.94
457814--457926	4	28.5	4	72	15	74	22	4	1	71	1.13
457868--457929	27	2.3	27	78	10	65	24	3	1	70	1.10
461917--461993	35	2.1	36	85	11	102	49	6	6	37	1.55
463246--463334	3	30.0	3	83	6	110	60	0	2	37	1.09
468271--468371	33	3.2	33	63	21	81	37	10	6	44	1.67
468272--468388	60	2.0	60	96	0	216	37	11	6	44	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475648--475678	14	2.3	14	94	5	55	41	0	0	58	0.98
477406--477439	17	2.1	16	94	5	59	50	0	0	50	1.00
477445--477500	3	19.0	3	81	3	60	58	1	3	35	1.26
478593--479799	167	7.2	167	87	3	1653	33	24	19	23	1.97
478599--479799	83	14.4	83	87	3	1547	33	24	19	23	1.97
480420--480460	2	21.0	2	95	5	75	48	0	0	51	1.00
481504--481548	25	1.9	23	82	13	56	28	8	0	62	1.25
481547--481603	30	1.9	30	85	7	80	21	0	5	73	1.02
481543--481593	26	2.0	26	84	0	66	19	0	5	74	1.02
481543--481617	14	5.4	14	76	9	57	17	2	4	76	1.06
481669--481724	3	18.3	3	96	3	103	32	1	0	66	1.03
485033--485225	97	2.0	97	92	0	323	31	11	8	48	1.70
486360--486421	29	2.1	29	100	0	124	22	29	11	37	1.89
486684--486712	4	7.2	4	100	0	58	51	0	0	48	1.00
491995--492074	35	2.3	35	91	0	124	41	26	2	30	1.69
494360--494501	74	1.9	73	97	1	266	29	21	14	34	1.93
494691--494983	148	2.0	148	94	0	514	35	6	10	47	1.65
495468--495563	35	2.7	35	86	0	111	30	2	28	39	1.68
496336--496396	32	1.9	32	86	6	88	39	11	9	39	1.75
499753--499782	2	15.0	2	100	0	60	50	0	0	50	1.00
519442--519516	2	38.0	2	97	2	143	49	0	0	50	1.00
530730--530781	24	2.0	27	85	10	74	25	19	11	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531433--531521	26	3.5	25	77	9	90	47	7	11	33	1.68
531450--531521	25	2.9	24	79	8	72	48	8	12	30	1.70
536766--536811	20	2.3	20	84	0	65	23	21	17	36	1.94
536921--537080	80	2.0	80	96	0	293	40	11	9	38	1.73
539392--539483	31	3.0	31	84	6	125	27	17	19	35	1.94
545075--545166	31	3.0	31	84	9	127	26	18	19	35	1.95
548013--548065	20	2.7	19	91	8	72	28	13	22	35	1.92
548023--548065	20	2.2	20	100	0	86	23	16	23	37	1.94
559731--559847	55	2.1	56	96	3	220	34	19	14	31	1.92
560715--561171	226	2.0	223	85	2	612	40	12	14	32	1.84
561045--561240	105	1.9	105	88	2	295	42	10	11	35	1.75
561502--561537	17	2.1	17	100	0	72	36	5	11	47	1.63
569272--570292	510	2.0	510	100	0	2042	31	14	21	33	1.93
574806--574854	20	2.3	22	86	6	66	34	2	2	61	1.19
576488--576524	2	18.5	2	100	0	74	51	0	0	48	1.00
577184--577303	39	3.1	39	80	4	152	28	25	25	20	1.99
582472--582523	27	1.9	27	96	0	95	26	3	23	46	1.69
583091--583653	134	4.2	134	84	4	717	29	16	21	31	1.96
585418--585722	134	2.3	134	88	1	450	30	17	22	29	1.96
587906--587958	24	2.2	24	96	0	97	47	11	5	35	1.63
588975--589007	4	8.5	4	86	6	50	75	3	0	21	0.93
590173--590267	13	7.6	13	70	11	56	17	1	5	75	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590170--590216	18	2.6	18	90	6	69	21	0	4	74	0.99
590181--590252	34	2.1	34	82	5	83	18	0	4	77	0.92
590172--590253	22	3.7	21	79	11	76	18	0	3	78	0.90
596098--596215	40	2.9	39	85	5	155	31	16	14	38	1.88
597993--598050	22	2.6	22	82	15	75	12	1	1	84	0.78
597993--598050	23	2.6	23	84	13	77	12	1	1	84	0.78
597997--598058	20	3.1	20	77	13	65	12	1	1	83	0.79
598002--598050	13	4.2	11	82	17	55	10	2	2	85	0.76
597994--598072	7	10.4	8	77	21	57	17	1	2	78	0.93
598543--598573	13	2.4	13	100	0	62	22	16	16	45	1.85
600671--600699	6	4.8	6	100	0	58	68	0	0	31	0.89
604886--604969	39	2.2	39	95	0	150	30	21	23	23	1.99
607848--607922	34	2.2	34	90	0	114	58	18	12	10	1.61
609097--609137	10	4.1	10	83	0	55	29	29	0	41	1.56
609179--609219	18	2.3	18	91	4	66	29	4	2	63	1.28
611424--611495	26	3.0	24	68	27	62	25	6	5	62	1.42
615684--615714	3	10.3	3	100	0	62	67	0	32	0	0.91
615690--615815	62	2.0	62	92	6	211	40	14	25	19	1.89
615752--615780	3	9.7	3	100	0	58	65	0	34	0	0.93
615853--616209	3	117.7	3	89	6	542	64	2	33	0	1.06
618982--619040	28	2.1	28	90	0	91	25	10	6	57	1.56
619841--619895	2	27.5	2	100	0	110	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620039--620072	2	17.0	2	100	0	68	50	0	0	50	1.00
620070--620126	4	14.8	4	81	7	73	26	3	21	49	1.65
620046--620102	18	3.2	18	82	0	60	38	1	10	49	1.48
620042--620128	12	7.4	12	81	5	79	34	2	13	49	1.55
621701--622321	204	3.0	203	85	2	791	26	19	26	28	1.99
624774--624811	18	2.1	19	85	5	51	71	15	7	5	1.28
628329--628412	32	2.6	32	84	0	105	26	29	26	17	1.98
629080--629217	69	2.0	69	97	0	258	34	26	10	28	1.89
638178--638246	23	3.0	23	78	0	84	39	21	2	36	1.69
638463--638520	23	2.5	23	100	0	116	25	25	22	25	2.00

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