genome.fa.s9609.2.7.7.80.10.50.1000.3.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: VEPZ01009609.1 Hibiscus syriacus cultivar Beakdansim tig00116995_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1078827

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 509 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)
613707--613743	14	2.5	15	95	4	67	5	21	21	51	1.68
613422--613782	181	2.0	180	97	2	681	20	20	15	42	1.88
613734--613758	12	2.1	12	100	0	50	0	28	0	72	0.86
613933--613986	24	2.2	24	93	0	90	40	20	18	20	1.91
614725--614792	20	3.4	20	89	0	100	25	20	26	27	1.99
614776--614831	20	2.8	20	97	0	103	26	21	16	35	1.94
614828--614873	21	2.2	21	92	0	74	36	19	26	17	1.94
616480--616562	29	2.8	29	92	1	139	43	9	14	32	1.78
619921--619950	15	2.0	15	93	0	51	20	0	23	56	1.42
621229--621311	29	2.8	29	92	1	139	43	9	14	32	1.78
632590--632665	35	2.2	35	90	4	118	40	22	1	35	1.62
633062--633309	130	1.9	130	92	0	415	36	15	12	35	1.85
633076--633340	130	2.0	129	81	4	300	39	13	12	33	1.83
633635--633697	28	2.3	27	78	8	63	46	1	3	49	1.27
633777--633810	16	2.0	18	88	11	54	64	5	2	26	1.30
634327--634365	20	2.0	20	89	0	60	46	2	0	51	1.14
654502--654546	19	2.2	20	88	7	65	44	4	0	51	1.21
654792--654847	29	1.9	29	82	7	69	14	5	16	64	1.46
661493--661530	16	2.4	16	90	0	58	39	2	7	50	1.46
663749--663912	75	2.2	75	81	4	197	35	14	8	41	1.76
663939--664176	75	3.2	73	83	6	298	34	12	11	41	1.80
664740--664770	16	1.9	16	93	0	53	19	12	19	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665129--665363	75	3.1	75	87	2	330	36	13	11	38	1.80
665097--665551	248	1.8	248	85	2	637	36	12	10	40	1.79
665214--665536	173	1.9	173	88	5	492	36	13	11	39	1.80
665288--665469	98	1.9	98	86	6	262	35	12	10	40	1.79
665389--665551	75	2.2	74	86	5	229	35	11	10	42	1.75
665865--665967	37	2.8	37	92	2	163	39	15	11	33	1.84
666417--666458	16	2.8	16	80	20	54	33	0	0	66	0.92
666435--666493	23	2.5	23	81	10	66	22	1	1	74	1.00
666419--666493	16	4.8	15	75	14	53	25	1	1	72	1.01
666419--666489	7	10.1	7	73	19	51	26	1	1	70	1.04
666765--667080	21	15.3	19	74	16	245	21	19	23	35	1.96
666738--667080	42	8.2	42	91	1	519	21	19	23	35	1.96
667950--668020	21	3.4	21	74	14	74	42	19	15	22	1.89
667944--668043	42	2.4	42	89	0	146	37	21	18	24	1.94
668014--668068	21	2.6	21	88	0	65	32	25	20	21	1.97
668403--668462	22	2.7	22	86	2	75	20	10	5	65	1.42
668399--668441	22	2.0	22	100	0	86	23	6	4	65	1.37
668495--668542	24	2.0	23	84	4	60	18	8	0	72	1.08
670337--670365	3	9.7	3	100	0	58	68	0	0	31	0.89
671667--671692	2	13.0	2	100	0	52	50	0	0	50	1.00
671762--671795	15	2.3	15	100	0	68	47	20	14	17	1.83
672174--672220	18	2.7	18	83	3	60	36	6	27	29	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672506--672556	19	2.6	20	87	3	68	35	33	11	19	1.88
672506--672661	20	7.9	19	74	11	73	39	27	13	19	1.89
672569--672755	40	4.7	39	74	10	173	42	21	14	20	1.88
672681--672762	20	4.1	20	79	6	94	45	20	17	17	1.86
672569--672741	80	2.2	80	88	2	249	42	21	15	20	1.88
674104--674139	18	2.0	18	88	0	54	50	11	5	33	1.61
674523--674572	25	2.0	25	96	0	91	44	22	8	26	1.80
674637--674745	54	2.0	56	90	3	177	39	18	20	22	1.92
677187--677220	3	11.3	3	100	0	68	0	35	0	64	0.94
677395--677448	24	2.2	24	93	0	90	42	18	16	22	1.89
677411--677462	24	2.2	24	82	0	59	38	19	17	25	1.93
677569--677608	12	3.2	12	85	3	53	15	0	35	50	1.44
678377--678442	18	3.5	18	79	8	69	33	13	21	31	1.92
678479--678577	20	4.9	20	73	0	90	23	16	19	41	1.90
678472--678606	40	3.4	40	83	4	166	21	17	22	39	1.92
678769--679277	232	2.2	229	88	6	742	38	19	13	28	1.90
679756--679842	4	20.8	4	72	19	54	73	2	2	21	1.06
679879--679931	11	4.4	12	77	15	56	81	0	0	18	0.70
679881--679919	11	3.7	10	90	10	60	87	0	0	12	0.55
679882--679931	16	2.8	17	85	14	66	82	0	0	18	0.68
679883--679922	6	7.2	6	78	16	50	85	0	0	15	0.61
679881--679922	21	2.0	21	90	4	66	85	0	0	14	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679938--680006	23	3.3	23	66	26	71	68	2	5	23	1.25
679938--680020	39	2.1	39	100	0	166	66	2	7	24	1.29
680096--680145	15	2.9	18	74	17	52	72	6	2	20	1.16
681920--682387	84	5.7	83	76	7	409	26	19	24	29	1.98
682077--682379	161	1.9	161	94	0	534	27	19	24	28	1.98
681899--682377	245	1.9	247	82	4	599	26	20	23	29	1.99
687766--687796	16	2.0	16	93	6	55	80	6	6	6	1.02
688817--688903	4	20.8	4	73	13	61	71	2	2	24	1.09
688946--688988	15	2.7	15	83	16	52	79	0	2	18	0.85
688946--688983	17	2.2	17	90	9	60	81	0	2	15	0.80
689869--690254	190	2.0	190	95	0	700	25	15	13	45	1.82
692619--692648	9	3.3	9	90	0	51	56	20	23	0	1.42
693772--693807	2	18.0	2	100	0	72	50	0	0	50	1.00
703077--703123	25	1.9	24	83	12	60	53	2	0	44	1.12
704463--704509	2	23.5	2	100	0	94	51	0	0	48	1.00
705485--705527	19	2.2	19	83	4	50	27	0	9	62	1.25
707515--707549	14	2.4	14	90	4	52	42	14	8	34	1.76
707657--707711	22	2.5	22	85	5	76	52	0	0	47	1.00
708389--708416	14	2.0	14	100	0	56	35	14	21	28	1.92
710061--710085	11	2.3	11	100	0	50	28	24	0	48	1.52
713799--713831	3	11.0	3	100	0	66	33	0	0	66	0.92
715698--715732	16	2.2	16	89	0	52	40	0	2	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
717778--717939	65	2.5	65	85	6	204	28	24	19	28	1.98
723672--723749	24	3.4	23	71	18	56	24	24	20	30	1.98
725918--725943	2	13.0	2	100	0	52	50	0	0	50	1.00
726437--726598	65	2.5	65	81	6	186	28	22	18	30	1.97
726569--726616	19	2.6	19	83	9	55	25	27	20	27	1.99
727421--727498	35	2.2	35	83	0	93	44	16	1	37	1.56
727673--727958	148	2.0	146	88	4	434	36	6	9	47	1.62
728365--728415	21	2.4	21	100	0	102	17	0	33	49	1.47
728464--728544	35	2.3	35	82	4	101	25	1	29	43	1.63
728480--728546	35	1.9	35	90	0	107	28	0	25	46	1.53
728480--728557	35	2.2	35	86	4	104	30	0	25	43	1.55
729665--729702	20	2.0	20	90	10	62	50	5	21	23	1.69
730198--730235	17	2.2	18	95	4	69	52	0	10	36	1.36
735048--735103	12	4.7	12	93	0	76	16	46	26	10	1.79
740002--740090	43	2.0	44	86	2	126	42	3	7	46	1.49
740640--740665	2	13.0	2	100	0	52	50	0	0	50	1.00
742987--743037	26	2.0	26	88	0	75	54	0	3	41	1.19
743834--743880	23	2.0	24	88	8	71	42	2	2	53	1.25
745914--745944	2	15.5	2	100	0	62	0	48	0	51	1.00
745944--745996	2	26.5	2	96	0	97	49	1	0	49	1.12
749903--749932	2	15.0	2	100	0	60	0	50	0	50	1.00
759594--759668	35	2.1	35	90	4	116	25	10	16	48	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
762710--762876	82	2.0	82	100	0	334	19	9	17	53	1.70
768278--768352	26	2.9	26	88	5	73	22	17	21	38	1.93
768292--768352	26	2.3	26	100	0	122	19	16	22	40	1.90
779703--779732	15	2.0	15	100	0	60	26	6	26	40	1.81
780487--780614	65	2.0	65	93	0	220	43	25	15	14	1.85
787240--787293	26	2.1	26	85	0	72	14	46	7	31	1.73
795176--795219	19	2.2	20	88	4	63	50	6	0	43	1.29
801094--801373	150	1.9	149	93	0	488	31	15	16	36	1.90
801824--802263	217	2.0	218	98	1	848	26	13	20	40	1.89
805298--805400	34	3.0	34	88	0	152	43	3	17	34	1.67

Tables:   1   2   3   4   5