genome.fa.s8002.2.7.7.80.10.50.1000.3.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: VEPZ01008002.1 Hibiscus syriacus cultivar Beakdansim tig00110461_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1031338

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 489 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)
490290--490443	57	2.7	57	89	2	229	18	19	18	43	1.88
490511--490559	21	2.3	21	96	0	89	16	26	14	42	1.86
490519--490565	21	2.4	19	86	10	60	14	27	10	46	1.78
498073--498135	29	2.2	29	88	5	92	44	12	14	28	1.82
508226--508284	16	3.7	16	88	0	91	37	20	8	33	1.83
516197--516241	11	4.1	11	82	5	56	71	4	11	13	1.29
516197--516238	22	1.9	22	90	9	68	69	4	11	14	1.34
523613--523647	18	1.9	18	94	0	61	40	25	17	17	1.90
524420--524454	18	1.9	18	94	0	61	40	25	17	17	1.90
523369--524991	807	2.0	807	99	0	3237	27	21	20	30	1.98
525254--525305	22	2.4	22	93	0	86	25	23	21	30	1.99
525254--525317	22	2.5	27	69	28	66	25	21	21	31	1.98
526593--526656	26	2.3	29	80	20	75	43	20	12	23	1.85
527691--527747	24	2.4	25	76	8	64	21	17	15	45	1.85
529967--530049	39	2.1	39	90	0	130	40	10	19	28	1.85
534702--534771	30	2.3	30	87	0	95	31	21	21	25	1.98
544370--544402	12	2.6	13	90	4	50	33	0	3	63	1.10
551782--551854	29	2.4	30	81	4	76	30	15	8	46	1.74
552003--552076	29	2.5	30	77	16	82	40	6	20	32	1.78
552025--552082	29	2.0	28	80	9	64	44	6	17	31	1.75
555616--555654	20	2.0	20	94	0	69	51	17	15	15	1.77
555671--555721	20	2.5	20	83	0	66	5	23	19	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555671--555727	20	2.8	20	78	5	62	7	21	19	52	1.69
555723--555761	20	2.0	20	84	0	51	17	12	20	48	1.80
557255--557351	42	2.3	42	89	0	149	27	35	19	17	1.94
557904--558000	21	4.6	21	80	0	113	22	34	18	24	1.96
559623--559657	15	2.3	15	100	0	70	28	34	22	14	1.93
563840--564057	108	2.0	108	99	0	427	27	24	20	27	1.99
566577--566611	15	2.3	15	95	0	61	28	31	22	17	1.96
573422--573456	15	2.3	15	95	0	61	31	34	20	14	1.92
580267--580301	15	2.3	15	100	0	70	28	34	22	14	1.93
587127--587161	15	2.3	15	100	0	70	28	34	22	14	1.93
589097--589139	20	2.2	20	91	0	68	44	23	11	20	1.84
589154--589207	20	2.7	20	88	0	81	40	18	20	20	1.91
589219--589303	20	4.2	20	93	0	125	17	18	17	45	1.85
589559--589594	18	2.0	18	94	0	63	19	2	22	55	1.56
592947--593029	41	2.0	42	81	6	98	34	12	25	27	1.91
603120--603145	13	2.0	13	100	0	52	38	7	23	30	1.83
614252--614292	22	1.9	21	90	5	64	70	4	0	24	1.06
616352--616420	3	23.3	3	81	8	79	37	2	0	59	1.12
621228--622073	106	8.0	106	93	0	1331	33	25	18	23	1.96
622120--622454	84	4.0	84	83	4	379	29	25	20	24	1.99
622120--622454	168	2.0	169	85	2	451	29	25	20	24	1.99
622694--622762	3	23.3	3	81	8	79	37	2	0	59	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626375--626424	6	8.3	6	100	0	100	34	0	50	16	1.45
626612--626693	29	2.8	29	96	0	155	26	28	26	18	1.98
626704--626782	35	2.3	35	100	0	158	26	34	20	18	1.96
626769--626826	26	2.2	26	100	0	116	18	39	24	17	1.92
626758--626991	67	3.2	67	85	14	315	21	37	22	18	1.94
626836--627009	26	6.2	26	72	25	119	20	37	22	19	1.94
626893--626959	35	1.9	35	100	0	134	23	34	20	20	1.97
626935--627050	41	3.0	41	78	21	169	20	40	21	17	1.91
626951--627023	32	2.3	32	100	0	146	20	39	21	17	1.92
626935--627074	73	2.0	67	91	8	226	20	39	22	17	1.93
627019--627074	26	2.2	26	100	0	112	19	37	25	17	1.94
626716--627078	183	2.0	177	96	3	672	20	36	22	19	1.95
627118--627205	29	3.0	29	100	0	176	13	30	31	23	1.93
627206--627237	13	2.5	13	94	0	55	18	46	3	31	1.65
627391--627442	25	2.1	25	92	0	86	28	9	32	28	1.89
627505--627557	21	2.5	21	96	0	97	62	0	35	1	1.06
627503--627534	17	1.9	16	93	6	55	62	0	37	0	0.95
627761--627851	45	2.0	47	87	8	134	41	0	12	46	1.41
627720--627851	45	3.0	44	80	14	132	40	0	12	46	1.41
630687--630740	28	1.9	28	96	0	99	57	12	0	29	1.36
630682--630747	28	2.4	28	85	10	98	56	10	0	33	1.34
630717--630765	21	2.3	21	85	3	71	53	16	0	30	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631228--631283	17	3.4	17	80	5	78	16	51	10	21	1.74
631200--631283	33	2.4	34	92	5	134	16	52	9	21	1.72
631218--631269	16	3.2	16	78	5	68	15	55	7	21	1.64
631321--631409	29	3.1	29	96	0	160	17	35	30	15	1.92
641359--641398	22	1.9	22	90	10	66	32	2	10	55	1.47
642566--642697	39	3.4	40	75	4	117	21	21	25	31	1.98
645421--645478	24	2.4	24	82	0	62	34	13	8	43	1.75
649031--649107	31	2.4	32	82	2	93	46	5	16	31	1.69
653419--653546	59	2.2	60	83	8	163	34	20	3	41	1.71
653755--653865	58	1.9	58	84	0	150	47	7	11	33	1.67
653705--653850	29	5.0	28	65	13	71	47	6	15	30	1.71
654350--654382	3	10.7	3	93	6	57	30	3	0	66	1.06
654709--654759	22	2.3	22	100	0	102	47	5	13	33	1.67
655169--655232	16	4.0	16	72	0	56	54	29	7	7	1.57
655316--655343	3	9.3	3	100	0	56	32	0	0	67	0.91
655941--656055	31	3.7	32	72	3	90	40	28	9	21	1.85
659672--659869	65	3.0	65	87	0	279	31	14	22	32	1.93
660148--660208	29	2.1	29	93	0	104	34	6	21	37	1.79
660887--660922	2	18.0	2	100	0	72	50	0	0	50	1.00
677445--677509	32	2.0	32	96	0	121	27	16	15	40	1.89
683018--683217	53	3.8	53	91	2	314	20	26	22	32	1.98
683584--683675	41	2.2	41	85	11	118	35	23	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
683883--683986	42	2.5	41	81	3	127	29	24	23	23	1.99
683705--684095	214	1.8	214	94	0	692	32	18	14	34	1.92
694834--694868	18	1.9	18	88	0	52	54	0	17	28	1.43
711800--711846	2	24.0	2	95	4	87	48	0	0	51	1.00
713797--713821	9	2.8	9	100	0	50	32	0	8	60	1.26
716337--716410	29	2.4	32	77	8	82	39	8	2	50	1.46
725110--725142	17	1.9	17	93	0	57	66	0	0	33	0.92
725154--725195	16	2.7	15	75	17	50	42	4	0	52	1.22
725221--725263	16	2.8	15	83	13	52	55	2	0	41	1.12
725331--725372	14	2.9	14	82	10	50	73	0	0	26	0.83
727631--727655	6	4.2	6	100	0	50	0	20	16	64	1.30
728429--728554	60	2.1	61	79	10	134	41	3	24	30	1.73
730448--730511	29	2.2	29	88	0	92	51	0	31	17	1.45
730448--730719	23	11.5	23	75	11	185	47	2	27	21	1.64
730478--730716	114	2.1	114	82	7	277	47	2	26	22	1.65
730492--730722	68	3.4	64	76	13	194	46	3	27	22	1.67
730474--730720	117	2.1	119	80	10	285	47	2	27	22	1.65
732140--732179	20	2.0	20	85	9	55	10	7	12	70	1.35
736233--736454	31	7.2	31	93	0	390	34	16	11	37	1.85
736366--736450	16	5.4	16	64	25	56	31	16	12	38	1.87
738705--738831	31	4.1	31	77	9	132	30	18	19	31	1.96
739927--740104	64	2.8	65	84	2	225	26	19	21	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
739990--740151	64	2.5	64	86	4	211	27	20	19	32	1.97
743209--743461	31	8.2	31	93	0	443	34	15	11	38	1.83
743971--744148	64	2.8	65	84	2	225	26	18	21	32	1.97
744034--744195	64	2.5	64	86	4	211	27	20	19	32	1.97
749626--749655	12	2.5	12	100	0	60	10	13	50	26	1.73
749719--749756	2	19.0	2	100	0	76	50	0	0	50	1.00
752371--752410	3	13.3	3	89	0	62	37	0	27	35	1.57
755787--755819	2	16.5	2	93	0	57	48	0	0	51	1.00
756166--756268	30	3.4	30	88	5	145	24	16	23	35	1.95
759640--759795	64	2.5	63	82	6	179	32	19	23	23	1.98

Tables:   1   2   3   4   5