genome.fa.s7804.2.7.7.80.10.50.1000.3.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: VEPZ01007804.1 Hibiscus syriacus cultivar Beakdansim tig00110122_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1697051

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1034 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)
492749--492782	6	5.7	6	85	0	50	11	5	0	82	0.83
492786--492856	12	5.9	12	73	26	53	15	4	5	74	1.16
492946--492987	20	2.0	21	90	4	68	38	7	0	54	1.28
498011--498790	164	4.7	164	85	2	924	30	24	20	24	1.99
498022--498793	248	3.1	247	79	5	835	30	24	20	24	1.99
498056--498792	329	2.2	327	85	3	973	29	24	20	24	1.99
499335--499369	2	18.0	2	94	5	63	48	0	0	51	1.00
499396--499630	39	6.2	37	73	17	144	43	5	6	44	1.54
499376--499601	36	5.8	36	77	13	159	44	5	7	42	1.55
499615--499695	32	2.5	33	93	4	137	43	2	7	46	1.45
499767--499791	13	1.9	13	100	0	50	24	0	4	72	1.02
499764--499811	17	2.8	17	84	12	55	22	4	4	68	1.24
500949--500998	18	2.7	19	84	9	68	16	8	6	70	1.32
505299--505344	21	2.2	21	96	0	83	32	13	28	26	1.93
507316--507353	14	2.7	14	84	12	51	81	5	2	10	0.94
507315--507370	19	3.1	19	77	12	64	80	3	1	14	0.93
507403--507461	14	4.3	13	77	12	64	74	3	3	18	1.10
507595--507640	2	24.5	2	79	20	55	54	0	2	43	1.12
507622--507777	52	3.1	48	75	14	125	63	2	3	30	1.23
507955--508014	21	2.8	22	80	14	72	63	0	1	35	1.05
507921--508014	28	3.3	27	69	15	66	65	0	3	30	1.08
509701--510483	80	9.7	80	83	2	926	24	19	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510447--510510	26	2.4	26	84	7	76	23	17	23	35	1.95
510365--510595	110	2.1	110	85	0	300	22	18	24	34	1.96
510283--510678	194	2.1	190	85	3	533	23	17	24	34	1.96
510474--510908	84	5.2	84	85	1	539	22	18	25	34	1.96
510477--510908	169	2.6	168	84	3	589	22	18	25	34	1.96
512026--512280	95	2.7	94	85	3	314	33	16	16	33	1.92
514960--515023	17	3.5	17	70	25	51	75	6	4	14	1.17
515047--515115	11	5.9	11	76	20	52	78	2	2	15	1.00
515061--515115	24	2.3	24	87	9	78	78	1	1	18	0.94
515049--515120	34	2.1	36	86	5	103	77	2	2	16	1.00
514960--515118	83	1.9	82	80	12	182	72	4	5	16	1.20
515042--515116	38	2.0	38	82	7	91	77	2	2	17	1.00
515042--515122	19	4.0	20	75	13	67	76	2	2	18	1.01
515347--515403	2	29.5	2	86	13	84	52	0	1	45	1.11
515344--515436	16	5.5	17	77	12	57	58	2	1	38	1.17
515347--515492	25	5.6	25	70	15	89	59	1	2	36	1.20
515439--515550	59	1.9	58	83	7	136	62	2	2	32	1.23
515556--515632	30	2.5	30	85	4	91	59	10	1	28	1.38
515634--515686	22	2.4	22	81	12	56	67	1	7	22	1.25
515644--515686	22	2.1	21	87	12	63	67	0	9	23	1.19
515655--515684	12	2.4	13	94	5	53	66	0	10	23	1.21
515647--515739	11	8.9	10	69	24	50	69	0	8	21	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515722--515791	21	3.3	21	76	11	72	67	0	1	31	1.00
516612--516716	37	2.8	37	89	0	165	40	13	15	31	1.85
517817--517853	19	1.9	19	89	10	58	8	24	0	67	1.17
521282--521357	7	10.6	7	78	13	75	78	3	15	1	0.96
521276--521357	36	2.2	34	83	12	92	78	4	15	1	0.99
521282--521357	22	3.5	20	78	18	82	78	3	15	1	0.96
521970--522029	22	2.7	22	92	0	102	45	28	8	18	1.78
522837--523686	106	8.0	106	92	0	1346	34	25	17	22	1.96
524402--524504	36	2.8	37	89	1	154	40	12	15	31	1.85
525223--525279	25	2.3	26	81	9	73	52	5	5	36	1.47
528436--528476	21	2.0	21	95	0	73	58	9	4	26	1.50
533012--533131	35	3.4	35	85	5	161	37	19	19	24	1.94
533012--533150	35	3.9	35	81	7	129	37	19	19	23	1.94
533012--533149	71	2.0	70	82	1	168	37	19	19	23	1.94
533925--533975	26	2.0	26	84	7	68	21	17	23	37	1.94
537304--537443	36	4.0	35	78	4	140	37	19	17	25	1.93
541365--541541	40	4.5	39	82	2	212	23	17	25	32	1.97
542335--542372	16	2.4	15	87	12	58	28	26	13	31	1.93
542343--542373	16	1.9	16	100	0	62	32	25	12	29	1.93
542547--542588	17	2.5	17	100	0	84	26	11	7	54	1.62
542652--542696	19	2.4	19	96	3	83	26	8	33	31	1.87
545203--545238	12	3.0	12	87	0	54	22	25	8	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550562--550601	21	1.9	21	85	10	55	37	0	0	62	0.95
551508--551537	2	15.0	2	100	0	60	50	0	0	50	1.00
551654--552079	209	2.0	208	97	2	789	43	4	5	46	1.47
554033--554079	21	2.2	22	85	11	62	48	4	2	44	1.34
554045--554084	22	1.9	21	85	10	55	52	5	0	42	1.23
554749--554924	80	2.2	79	91	8	286	46	5	7	40	1.55
555615--555655	20	2.0	20	90	4	64	34	0	0	65	0.93
561739--561800	29	2.1	29	100	0	124	30	27	19	22	1.98
571696--571786	31	3.0	29	76	13	94	62	4	7	25	1.41
573437--573476	12	3.3	12	85	0	62	55	0	2	42	1.13
573473--573537	2	34.0	2	87	9	100	50	1	0	47	1.10
573739--573992	135	1.9	135	97	1	483	25	22	18	34	1.96
573662--574236	247	2.3	247	86	7	763	25	21	17	35	1.95
574155--574326	92	1.9	90	86	2	245	25	22	13	38	1.91
574371--574427	16	3.4	16	69	21	53	21	26	8	43	1.81
575305--575370	16	3.9	17	82	11	73	7	12	0	80	0.91
575303--575371	35	2.0	35	83	11	88	7	11	0	81	0.88
575330--575371	9	4.7	9	82	5	50	7	7	0	85	0.73
575299--575359	23	2.6	23	78	17	63	6	14	0	78	0.94
578941--578973	16	2.1	16	100	0	66	57	24	12	6	1.57
579039--579113	10	7.7	10	69	21	61	57	21	12	9	1.62
579043--579107	16	4.1	16	95	0	121	56	23	12	7	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579861--579916	14	4.3	14	82	17	75	51	25	14	8	1.70
579841--579915	24	3.1	24	90	3	107	54	21	12	12	1.69
579854--579901	10	4.4	10	78	19	51	54	22	12	10	1.68
579933--580009	40	2.0	40	89	2	120	36	15	11	36	1.84
586289--586347	22	2.7	22	70	0	64	67	8	0	23	1.17
586416--586484	30	2.3	28	81	16	77	65	2	7	24	1.32
586244--586599	182	2.0	174	91	7	583	60	4	5	30	1.37
586242--586612	185	2.1	175	90	9	588	60	4	4	30	1.36
588090--588125	19	1.9	18	88	5	54	52	0	2	44	1.15
588088--588160	27	2.8	27	80	12	73	54	1	1	42	1.17
588087--588163	17	4.9	17	72	21	62	55	1	1	41	1.16
588083--588170	22	4.1	22	76	22	73	55	3	1	39	1.24
588087--588171	44	1.9	44	84	13	113	56	2	1	40	1.20
588087--588171	21	3.9	22	81	17	97	56	2	1	40	1.20
589522--589569	23	2.0	24	96	4	89	27	16	27	29	1.97
592782--592939	21	7.8	20	69	7	68	38	25	17	18	1.92
592907--593135	20	11.4	20	81	5	230	37	25	17	18	1.93
594188--594352	33	4.8	34	80	13	169	46	19	20	13	1.83
594221--594428	19	11.7	19	77	19	234	45	17	21	14	1.85
594221--594428	71	2.9	70	86	7	253	45	17	21	14	1.85
594207--594422	52	4.1	52	86	9	289	46	18	21	13	1.83
594418--594535	53	2.2	52	96	3	218	13	24	17	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594437--594535	20	5.4	19	83	14	136	14	23	17	45	1.84
594639--594675	14	2.6	14	91	0	65	45	21	0	32	1.52
596573--596745	19	9.6	19	75	12	141	45	24	19	10	1.81
596667--596723	14	3.7	14	75	20	60	43	24	21	10	1.83
596648--596740	33	2.8	33	96	0	177	46	22	20	10	1.81
596758--596816	14	3.9	14	76	20	64	6	16	28	47	1.72
596741--596865	33	3.7	33	90	2	178	8	17	27	46	1.77
596741--596833	19	5.4	18	71	25	76	7	17	27	47	1.74
596791--596847	14	3.7	14	72	20	51	8	22	24	43	1.81
598745--598827	20	4.2	20	81	6	114	46	16	24	12	1.81

Tables:   1   2   3   4   5   6   7   8   9