genome.fa.s1976.2.7.7.80.10.50.1000.3.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: VEPZ01001976.1 Hibiscus syriacus cultivar Beakdansim tig00004004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  915387

Tables:   1   2   3   4   

This is table  3  of  4  ( 402 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)
513311--513368	11	5.5	11	76	13	50	68	6	6	17	1.34
513529--514148	338	1.8	338	88	2	960	43	8	4	43	1.54
520246--520533	20	14.2	20	76	14	245	41	22	19	16	1.90
520246--520533	40	7.1	40	85	7	343	41	22	19	16	1.90
520629--520709	6	13.5	6	100	0	162	33	50	16	0	1.45
521203--521378	6	31.5	6	98	1	261	0	17	50	32	1.47
521478--521697	20	10.8	20	77	16	184	16	20	25	36	1.94
521478--521697	42	5.4	40	76	13	184	16	20	25	36	1.94
521478--521637	62	2.5	62	91	4	250	18	20	26	34	1.96
529519--529576	30	1.9	31	89	3	91	50	1	0	48	1.11
529527--529574	22	2.2	21	85	3	60	52	2	0	45	1.12
529537--529644	29	3.8	29	70	12	80	51	0	0	46	1.13
529582--529673	41	2.4	37	77	15	87	47	1	1	50	1.15
529666--529745	19	4.3	18	72	20	58	51	1	1	46	1.17
529868--529917	20	2.5	19	75	9	55	56	0	0	44	0.99
531430--531517	40	2.2	40	82	8	99	36	20	7	35	1.82
543594--543619	2	13.0	2	100	0	52	50	0	0	50	1.00
544342--544371	3	10.0	3	100	0	60	66	0	0	33	0.92
544487--544637	60	2.5	59	80	9	155	31	20	4	43	1.72
544779--544914	60	2.3	60	81	2	148	44	4	17	33	1.69
544815--544945	60	2.2	60	82	5	149	43	6	16	33	1.73
548238--548601	181	2.0	182	99	0	721	27	25	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554863--554897	18	2.0	17	88	5	52	57	0	0	42	0.99
558002--558047	24	2.0	23	82	4	56	65	6	0	28	1.17
558291--558319	2	15.0	2	92	7	51	48	0	0	51	1.00
587070--587115	2	23.0	2	100	0	92	50	0	0	50	1.00
590258--590334	31	2.5	31	81	8	102	40	5	14	40	1.68
595866--596046	64	2.8	62	79	9	193	27	17	25	29	1.97
595888--596095	65	3.2	64	79	13	221	27	17	25	29	1.97
596263--596302	20	2.0	21	85	14	57	45	7	5	42	1.54
597921--597984	21	3.0	21	77	4	67	29	6	42	21	1.78
602374--602417	21	2.2	20	84	12	54	22	13	9	54	1.67
602529--602568	21	1.9	21	85	10	55	35	10	2	52	1.48
604495--604724	64	3.6	63	80	6	221	26	17	26	29	1.98
604623--604673	19	2.7	19	85	8	70	25	15	35	23	1.94
604517--604724	65	3.2	64	81	13	230	27	17	25	29	1.97
604892--604931	20	2.0	21	85	14	57	45	7	5	42	1.54
611761--611804	12	3.4	13	87	9	63	40	0	0	59	0.98
613057--613112	20	3.2	16	71	28	51	26	3	1	67	1.16
613057--613126	37	1.9	36	85	2	95	28	4	2	64	1.27
613276--613338	33	2.0	33	84	6	85	41	0	1	57	1.08
627939--627966	2	14.0	2	100	0	56	50	0	0	50	1.00
631245--631324	2	40.0	2	89	0	115	43	0	6	50	1.27
631246--631326	16	5.1	16	98	0	153	41	0	7	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632201--632249	21	2.3	21	89	0	71	24	24	16	34	1.95
632239--632325	20	4.3	20	77	2	102	37	19	19	22	1.94
632239--632325	41	2.2	40	85	2	111	37	19	19	22	1.94
632239--632335	20	4.8	20	74	12	72	36	19	20	23	1.95
633187--633240	24	2.2	24	93	0	90	20	18	20	40	1.91
635100--635175	20	3.8	20	89	6	109	35	25	19	19	1.95
635088--635184	20	4.8	20	81	7	90	35	23	20	20	1.96
636628--636720	42	2.2	42	80	3	107	22	17	39	20	1.92
637208--637266	20	3.0	20	87	0	82	38	18	18	23	1.93
637316--637456	20	7.3	20	85	9	195	19	19	21	39	1.93
639353--639407	20	2.8	20	88	0	74	49	21	16	12	1.79
639364--639424	20	3.0	20	87	0	77	40	24	18	16	1.90
639395--639467	33	2.2	34	82	7	87	39	24	20	15	1.91
646350--646405	26	2.2	26	83	0	67	48	3	8	39	1.52
656755--656836	31	2.8	29	90	7	114	50	18	4	26	1.67
656764--656836	31	2.4	31	95	4	132	52	17	5	24	1.66
657405--657479	27	2.8	27	85	4	89	64	8	0	28	1.22
659570--659610	6	6.8	6	100	0	82	51	0	48	0	1.00
661756--661854	22	3.4	32	72	27	119	53	8	0	38	1.31
661741--661854	55	2.1	54	96	1	210	52	9	0	37	1.34
661834--661946	15	7.5	15	73	19	101	52	1	0	45	1.17
661753--661946	50	4.0	47	80	15	177	51	5	0	42	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661834--661947	27	3.8	28	73	20	97	52	1	0	44	1.17
662556--662599	23	1.9	23	85	0	61	22	15	22	38	1.92
667257--667365	24	4.5	24	79	6	123	49	16	15	18	1.80
667269--667328	12	5.0	12	76	8	68	48	18	16	16	1.82
667257--667365	48	2.3	47	85	6	139	49	16	15	18	1.80
675696--675751	4	14.5	4	92	7	98	26	0	73	0	0.84
682119--682354	118	2.0	118	98	0	454	41	8	17	32	1.80
682603--682630	2	14.0	2	100	0	56	50	0	0	50	1.00
683923--683987	24	2.7	24	92	0	103	49	0	9	41	1.35
686774--686818	23	2.0	23	86	0	63	46	6	11	35	1.66
688894--689138	120	2.1	118	90	3	384	37	15	14	31	1.88
689012--689600	183	3.2	183	95	1	1029	33	16	15	33	1.91
690482--691054	200	2.9	200	94	0	1017	31	18	14	35	1.91
691315--691375	19	3.3	18	88	2	68	52	13	1	32	1.50
691326--691375	19	2.6	19	93	0	82	54	14	2	30	1.51
693055--693098	22	2.0	22	91	4	72	34	36	4	25	1.76
693182--693247	33	2.0	33	87	0	96	22	46	0	30	1.52
693279--693343	21	3.1	21	93	0	103	16	30	10	41	1.83
695520--695566	20	2.4	19	82	10	67	19	17	10	53	1.72
695487--695957	179	2.6	178	88	1	672	26	16	14	42	1.86
695487--695972	182	2.7	178	85	4	636	26	16	14	42	1.87
697432--697479	24	2.0	24	84	8	62	45	12	14	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
698496--698558	23	2.6	24	78	19	60	50	1	0	47	1.10
698542--698582	8	5.4	8	82	11	50	56	0	0	43	0.99
698578--698639	23	2.7	24	82	9	76	51	0	1	46	1.10
698564--698639	23	3.3	23	76	12	75	52	0	1	46	1.08
710631--710676	17	2.8	17	86	3	67	52	0	30	17	1.45
711857--711958	29	3.7	29	87	5	149	45	15	20	18	1.86
714113--714326	111	2.0	107	90	7	337	45	10	7	36	1.66
714390--714423	18	1.9	18	94	5	61	64	0	2	32	1.08
714870--714918	2	24.5	2	100	0	98	48	0	0	51	1.00
719671--719715	23	2.0	23	95	0	81	37	20	8	33	1.83
720454--720487	17	2.1	17	88	5	52	29	11	11	47	1.76
721049--721100	23	2.4	22	84	9	70	30	25	21	23	1.99
722972--723014	21	2.0	21	91	8	70	65	2	11	20	1.36
725065--726463	106	13.3	106	91	2	2198	23	17	25	33	1.96
727701--727755	19	2.9	18	79	12	58	0	16	5	78	0.93
727700--727759	30	2.0	31	87	9	88	0	15	5	80	0.88
727702--727759	14	3.9	14	82	13	64	0	15	5	79	0.90
728976--729024	25	2.0	25	84	8	64	48	8	20	22	1.75
730751--730793	21	2.0	21	91	8	70	67	2	9	20	1.30
732360--732396	2	19.0	2	94	5	67	48	0	0	51	1.00
746102--747481	692	2.0	691	98	0	2643	27	15	21	35	1.93
747743--747779	18	2.1	18	94	0	65	48	27	8	16	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
752955--752993	15	2.6	15	95	0	69	23	25	7	43	1.80
757441--757531	20	4.9	20	68	20	72	34	5	15	45	1.69
757440--757587	53	2.8	52	95	3	271	33	5	13	47	1.65
757546--757585	20	2.0	20	95	0	71	37	5	12	45	1.64
762153--762243	20	4.9	20	68	20	72	34	5	15	45	1.69
762152--762299	53	2.8	52	95	3	271	33	5	13	47	1.65
762258--762297	20	2.0	20	95	0	71	37	5	12	45	1.64
769055--769299	127	1.9	127	89	0	382	21	16	26	35	1.94
772486--772578	31	3.0	31	84	6	116	24	15	19	40	1.90
777062--777186	31	4.0	31	91	0	178	22	19	20	37	1.94

Tables:   1   2   3   4