genome.fa.s8798.2.7.7.80.10.50.1000.3.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: VEPZ01008798.1 Hibiscus syriacus cultivar Beakdansim tig00111947_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1825372

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1068 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)
471995--472346	41	8.6	41	77	11	321	35	18	17	28	1.94
471995--472342	162	2.1	164	82	8	406	34	18	17	28	1.94
474261--474296	17	2.1	17	89	0	54	47	0	0	52	1.00
474358--474408	22	2.3	22	83	10	59	58	0	1	39	1.09
481046--481076	15	2.1	15	100	0	62	25	25	41	6	1.79
484102--484397	155	2.0	144	84	7	378	40	15	16	27	1.88
484522--485259	369	2.0	369	100	0	1476	26	28	14	29	1.96
487659--487786	42	3.0	42	95	0	220	28	11	24	35	1.91
495918--495957	20	2.0	20	85	5	53	30	25	17	27	1.97
498041--498091	26	2.0	25	85	7	68	35	11	39	13	1.82
498735--498823	29	3.1	29	100	0	178	13	31	37	17	1.89
498842--498933	44	2.1	44	97	0	175	27	14	41	17	1.88
498905--499084	15	11.1	15	72	17	137	21	7	53	17	1.69
498892--499018	65	1.9	66	95	3	229	23	9	50	16	1.74
498907--499083	82	2.2	83	84	4	234	21	7	53	17	1.69
498895--499088	65	3.0	64	81	12	207	22	8	52	17	1.70
498970--499111	51	2.8	51	95	3	254	20	7	53	18	1.69
499184--499247	32	2.0	32	100	0	128	21	25	21	31	1.98
499555--499603	21	2.3	21	82	3	62	32	0	16	51	1.45
499580--499633	28	1.9	28	92	0	90	31	0	12	55	1.38
500146--500190	21	2.2	21	84	4	56	35	0	8	55	1.31
500446--500504	26	2.3	25	75	18	66	47	8	3	40	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503379--503876	26	20.2	26	77	15	384	43	2	10	44	1.51
503324--503741	98	4.3	98	87	6	383	43	2	10	44	1.51
503405--503767	98	3.7	98	89	5	463	43	2	10	44	1.51
503379--503876	124	4.0	124	83	11	548	43	2	10	44	1.51
504076--504108	17	1.9	17	93	0	57	36	6	12	45	1.66
511099--511138	20	2.0	20	90	5	62	32	22	17	27	1.96
514443--514517	39	1.9	39	86	0	105	26	24	28	21	1.99
514683--514739	25	2.3	25	87	0	78	31	15	21	31	1.94
514931--515207	107	2.6	105	81	12	312	31	3	11	54	1.52
530651--530712	3	21.0	3	79	9	56	67	3	3	25	1.20
530651--530712	18	3.3	19	76	10	74	67	3	3	25	1.20
530956--531125	90	1.9	89	91	3	279	25	18	28	27	1.98
530956--531089	46	3.0	46	69	10	132	25	19	27	27	1.99
530977--531115	46	3.1	44	72	10	131	25	18	28	27	1.98
530989--531126	43	3.1	44	72	11	129	25	18	27	28	1.98
545978--546039	3	21.0	3	79	9	56	67	3	3	25	1.20
545978--546039	18	3.3	19	76	10	74	67	3	3	25	1.20
546297--546337	21	1.9	22	85	14	59	36	31	21	9	1.86
552234--552341	56	1.9	56	100	0	216	46	12	4	36	1.63
552644--552717	31	2.4	31	81	6	87	17	14	9	58	1.63
555481--555519	20	2.0	20	94	0	69	33	15	15	35	1.89
558486--558540	21	2.6	21	85	0	74	21	20	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559274--559381	20	5.4	20	92	0	153	25	18	26	28	1.98
565255--565325	29	2.4	30	76	9	74	39	7	19	33	1.79
578331--578373	15	2.9	15	82	0	59	11	65	9	13	1.48
583211--583254	23	1.9	23	85	0	61	47	6	2	43	1.42
583735--583769	3	11.7	3	88	11	54	68	0	0	31	0.90
588368--588403	17	2.1	17	89	0	54	47	11	5	36	1.63
588587--588888	106	2.8	107	83	3	347	35	13	11	38	1.82
588735--589195	226	2.0	224	84	2	611	30	14	14	40	1.86
592072--592115	20	2.1	21	88	12	65	52	11	31	4	1.57
592666--592703	16	2.3	17	86	13	53	73	2	13	10	1.19
592909--592970	31	2.1	28	85	8	79	56	3	6	33	1.41
593004--593058	2	27.5	2	100	0	110	50	0	0	49	1.00
596258--596300	14	3.2	13	76	23	52	2	16	0	81	0.79
596258--596298	13	2.9	14	85	10	57	2	17	0	80	0.82
606338--606363	12	2.2	12	100	0	52	0	38	34	26	1.57
609948--609990	21	2.0	21	91	8	70	23	25	18	32	1.97
610944--610996	23	2.3	23	93	0	97	24	28	22	24	2.00
615576--615618	21	2.0	21	91	8	70	23	25	18	32	1.97
616592--616675	23	3.7	23	91	0	132	20	27	26	26	1.99
623280--624633	675	2.0	678	96	0	2491	35	18	18	27	1.94
625072--625110	16	2.4	17	87	12	55	74	2	12	10	1.17
625338--625399	31	2.1	28	85	8	79	56	3	6	33	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627404--627466	25	2.5	25	76	2	63	23	7	3	65	1.34
630273--630354	40	2.0	40	100	0	164	31	19	21	26	1.97
634208--634523	150	2.1	150	94	1	555	26	17	21	34	1.96
634491--634535	23	2.0	23	86	0	63	20	26	26	26	1.99
641247--641562	150	2.1	150	94	1	555	26	18	21	33	1.96
641530--641574	23	2.0	23	86	0	63	20	26	26	26	1.99
644549--644607	3	19.7	3	80	16	61	30	0	0	69	0.89
644548--644608	20	3.2	19	84	13	72	29	0	0	70	0.88
644664--644726	33	1.9	33	96	0	117	39	19	11	30	1.86
645101--645195	2	49.5	2	80	12	92	41	2	0	56	1.11
645100--645219	16	7.9	15	73	20	67	39	1	0	59	1.08
645100--645176	25	3.1	26	80	14	90	40	1	0	58	1.06
645100--645232	64	2.1	65	88	7	200	38	2	0	59	1.10
645107--645221	10	13.9	8	71	23	55	39	1	0	59	1.08
648947--649492	110	5.0	110	89	1	787	34	22	17	24	1.96
649599--650113	84	6.3	83	78	6	494	31	24	19	25	1.98
649600--650126	165	3.2	163	81	4	535	30	24	18	25	1.98
649594--650069	249	1.9	249	89	0	747	30	25	18	25	1.98
650458--650495	5	7.8	5	88	11	53	42	0	0	57	0.98
650559--650629	33	2.2	33	94	0	124	40	19	11	28	1.86
651021--651070	24	2.1	24	81	7	57	30	0	0	70	0.88
653336--653397	18	3.3	20	69	17	69	53	22	6	17	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653328--653402	36	2.1	36	100	0	150	53	22	5	18	1.65
664007--664041	18	1.9	18	88	0	52	45	0	2	51	1.16
664017--664046	15	2.1	14	93	6	51	50	0	0	50	1.00
671483--671534	16	3.4	16	71	10	54	61	7	0	30	1.24
671482--671532	15	3.4	15	71	10	50	60	7	0	31	1.25
672176--672247	22	2.9	24	73	19	60	43	5	0	51	1.25
672548--672628	41	2.0	41	82	4	101	33	11	18	37	1.86
673624--673659	3	11.7	3	94	5	63	36	0	0	63	0.94
674830--674863	2	17.0	2	100	0	68	50	0	0	50	1.00
674985--675019	2	17.5	2	100	0	70	48	0	0	51	1.00
675010--675145	50	2.7	49	87	4	191	29	7	12	50	1.67
675199--675311	50	2.2	51	88	1	174	30	4	9	55	1.52
675372--675430	2	31.0	2	90	10	97	49	0	0	50	1.00
674998--675393	185	2.1	185	83	7	534	31	6	12	49	1.65
675510--675555	24	1.9	24	100	0	92	39	4	6	50	1.48
687274--687363	15	6.4	14	72	19	71	77	1	12	8	1.04
687268--687371	48	2.2	47	85	10	133	77	0	13	7	1.02
687300--687362	17	3.9	17	69	26	57	79	0	11	9	0.94
687313--687371	30	2.0	27	84	12	73	81	0	11	6	0.87
688239--688717	136	3.6	136	83	7	583	34	17	21	27	1.95
688956--688998	3	14.7	3	90	4	70	37	0	0	62	0.95
690167--690194	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690316--690444	48	2.7	47	86	3	177	29	8	13	48	1.71
690179--690563	185	2.1	184	94	0	680	30	8	13	47	1.71
690500--690627	62	2.1	60	95	4	231	31	4	9	54	1.53
690690--690727	2	19.0	2	100	0	76	50	0	0	50	1.00
690829--690898	24	2.9	24	100	0	140	38	4	7	50	1.50
699204--699235	2	16.0	2	100	0	64	50	0	0	50	1.00
699693--699727	18	1.9	18	88	11	54	14	17	34	34	1.90
701653--701780	51	2.5	51	81	13	163	57	17	12	11	1.64
705745--705781	14	2.6	14	91	0	56	24	2	24	48	1.64
707103--707168	26	2.6	26	78	7	64	39	3	1	56	1.24

Tables:   1   2   3   4   5   6   7   8   9