genome.fa.s7912.2.7.7.80.10.50.1000.4.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: VEPZ01007912.1 Hibiscus syriacus cultivar Beakdansim tig00110313_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1361188

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 666 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)
800313--800421	3	36.7	3	86	5	150	65	0	1	33	1.04
813926--813951	10	2.6	10	100	0	52	15	30	23	30	1.95
822609--822643	2	17.5	2	100	0	70	48	0	0	51	1.00
828982--829028	22	2.1	22	88	0	67	23	12	4	59	1.51
836107--836217	58	1.9	59	88	1	170	24	17	22	36	1.95
845092--845121	15	2.0	15	100	0	60	20	13	26	40	1.89
845232--845277	16	2.8	17	78	18	53	43	6	0	50	1.28
845960--846008	21	2.4	21	86	3	64	38	8	6	46	1.58
846637--846677	22	1.9	22	85	5	57	36	0	2	60	1.10
847024--847050	13	2.1	13	100	0	54	33	0	0	66	0.92
848118--848191	18	3.9	17	77	19	76	17	4	10	67	1.36
848096--848185	39	2.3	40	92	1	146	21	4	10	64	1.41
848111--848170	21	3.0	21	75	20	74	18	3	10	68	1.32
848114--848178	21	3.2	21	70	12	73	18	3	9	69	1.29
848391--848429	18	2.2	17	86	4	51	15	2	5	76	1.06
848397--848430	9	3.9	9	96	3	61	11	0	5	82	0.83
848534--848558	3	8.3	3	100	0	50	32	0	0	68	0.90
848574--848621	16	2.9	17	76	17	55	18	2	4	75	1.07
848654--848778	18	7.0	17	72	22	55	14	2	7	76	1.11
848659--848696	20	1.9	20	94	0	67	13	2	5	78	1.02
848690--848764	21	3.6	20	79	13	80	12	2	8	77	1.08
848705--848769	25	2.6	24	87	4	85	13	0	9	76	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
848722--848777	18	3.2	18	92	7	89	14	0	8	76	1.00
850973--851087	58	2.0	58	86	3	162	27	14	6	50	1.69
851219--851279	22	2.8	22	80	5	61	29	9	21	39	1.85
855861--855904	21	2.1	21	82	0	52	9	43	15	31	1.79
860931--860992	20	2.9	21	80	7	72	25	30	25	17	1.97
865069--865117	19	2.6	19	84	9	57	28	28	16	26	1.97
869179--869375	49	4.0	48	87	3	270	27	21	13	37	1.91
887380--887421	20	2.1	20	100	0	84	14	19	0	66	1.25
895773--895809	16	2.4	16	86	8	51	43	32	2	21	1.67
905244--905291	17	3.0	15	77	14	51	56	27	2	14	1.50
907246--907285	21	1.9	21	89	0	62	10	25	40	25	1.86
923209--923296	45	2.0	45	86	0	122	30	14	25	29	1.95
925676--925743	29	2.3	29	77	5	75	55	22	1	20	1.51
926152--926185	8	4.0	8	92	7	50	82	2	0	14	0.79
926152--926185	17	2.0	17	88	11	52	82	2	0	14	0.79
927201--927243	22	2.0	22	81	9	52	37	11	20	30	1.89
931731--931796	23	2.9	23	80	8	71	33	24	22	19	1.97
934203--934237	13	2.7	13	87	12	54	17	11	0	71	1.14
934378--934440	20	3.1	20	75	11	65	46	7	0	46	1.32
934554--934612	22	2.5	23	79	17	68	49	5	0	45	1.24
935423--935469	21	2.2	21	100	0	94	19	17	27	36	1.93
939561--939613	26	2.0	26	100	0	106	39	15	11	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942570--942605	11	3.2	11	88	4	54	30	0	0	69	0.89
942557--942623	26	2.6	24	77	13	71	35	0	2	61	1.12
948421--948514	30	3.1	30	84	3	118	22	5	36	36	1.77
954081--954201	60	2.1	57	81	6	136	47	3	16	33	1.63
955184--955329	56	2.5	59	86	4	190	36	20	15	27	1.93
955588--955673	31	2.7	32	87	3	120	45	3	8	43	1.50
955588--955673	11	8.2	11	72	8	63	45	3	8	43	1.50
955851--956044	95	2.1	94	89	1	289	37	6	8	47	1.60
958197--958303	34	3.1	34	89	0	160	36	3	4	55	1.39
958824--958957	21	6.4	21	87	5	191	23	26	30	19	1.98
958848--958983	42	3.2	42	84	7	109	24	22	32	20	1.98
958963--959010	21	2.3	21	85	0	60	22	12	39	25	1.89
960737--960815	33	2.4	32	81	12	90	59	1	0	39	1.06
961026--961056	16	1.9	16	100	0	62	6	25	45	22	1.76
961038--961175	51	2.7	51	90	1	222	15	31	34	18	1.92
965669--965775	44	2.4	44	90	4	162	31	25	5	37	1.79
970113--970172	30	2.0	31	83	3	77	31	20	3	45	1.67
976292--976342	19	2.7	19	84	0	75	35	15	25	23	1.94
977102--977166	29	2.2	29	97	0	121	33	12	9	44	1.74
981087--981148	22	2.8	22	97	0	115	32	22	25	19	1.97
981158--981213	19	2.9	19	70	0	58	30	17	30	21	1.96
983974--984021	25	2.0	25	91	4	80	27	22	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005025--1005076	1	52.0	1	82	0	50	0	3	7	88	0.62
1005025--1005075	9	5.8	9	84	6	61	0	3	7	88	0.63
1005016--1005071	24	2.2	24	87	6	76	0	5	10	83	0.78
1006390--1006445	24	2.3	24	87	0	85	58	12	17	10	1.61
1013872--1013923	24	2.2	24	92	0	86	30	28	11	28	1.92
1026605--1026660	28	2.0	28	100	0	112	32	7	14	46	1.71
1029731--1029810	20	3.7	20	74	18	79	18	28	13	38	1.89
1029797--1029992	27	8.0	27	68	22	146	20	19	13	46	1.83
1029726--1029884	47	3.4	47	91	0	248	19	22	13	44	1.86
1029797--1029945	74	2.0	74	92	0	244	19	19	14	46	1.83
1029766--1029992	121	1.9	121	92	0	382	20	19	13	47	1.82
1029871--1029992	47	2.6	47	92	0	190	21	19	13	45	1.84
1030389--1030580	95	2.0	96	85	5	264	29	22	13	34	1.92
1036700--1036827	20	5.7	20	67	22	76	19	25	12	42	1.86
1036657--1036854	47	4.2	47	88	0	290	19	24	11	44	1.84
1036814--1037008	27	8.0	27	65	23	119	21	18	13	45	1.84
1036683--1036900	94	2.3	93	79	6	219	20	22	11	44	1.84
1036863--1036900	19	2.0	20	89	5	60	23	23	10	42	1.85
1036843--1037007	47	3.5	46	88	2	249	22	18	12	46	1.83
1036720--1036974	120	2.1	121	88	2	370	21	20	13	44	1.85
1036773--1036927	73	2.1	74	91	1	249	19	20	13	47	1.83
1036674--1037008	167	2.0	167	87	2	476	20	20	12	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037406--1037590	97	1.9	98	85	2	257	27	24	14	34	1.94
1039981--1040246	45	5.9	45	90	0	352	28	22	10	38	1.87
1039981--1040248	90	3.0	89	86	4	394	28	22	10	38	1.86
1039984--1040239	135	1.9	135	90	1	406	28	22	10	39	1.86
1054867--1055173	45	6.8	45	85	1	346	30	20	8	39	1.83
1054867--1055173	90	3.4	90	82	3	384	30	20	8	39	1.83
1054872--1055173	135	2.2	135	85	4	396	31	20	8	39	1.84
1057454--1057507	2	27.0	2	100	0	108	50	0	0	50	1.00
1058603--1058760	21	7.8	20	72	7	86	38	25	17	18	1.92
1058727--1058881	40	3.8	40	82	4	186	37	26	18	18	1.93
1058727--1058880	20	7.7	20	80	7	168	37	26	18	18	1.93
1059263--1059333	33	2.2	33	92	0	115	11	22	18	47	1.80
1059412--1059489	41	1.9	41	97	0	147	44	16	25	12	1.83
1059413--1059488	21	3.7	21	83	3	109	46	17	25	11	1.82
1059473--1059529	14	3.7	14	70	20	51	45	22	22	8	1.80
1059465--1059545	33	2.5	33	93	0	135	48	22	20	8	1.77
1059541--1059638	19	5.7	19	71	22	99	11	21	21	45	1.82
1059558--1059655	14	6.3	14	71	21	70	9	22	21	46	1.79
1059546--1059660	33	3.5	33	96	0	212	10	21	20	47	1.79
1061358--1061826	93	5.1	93	99	0	922	21	12	19	46	1.83
1061874--1062002	19	7.3	19	73	17	116	45	27	17	9	1.78
1061910--1062002	33	2.8	32	90	4	141	46	26	18	8	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061874--1062002	52	2.5	52	74	12	138	45	27	17	9	1.78
1061998--1062116	19	6.8	18	77	18	110	10	20	21	47	1.79
1062022--1062076	14	3.6	14	76	21	56	10	20	21	47	1.80
1062003--1062095	33	2.8	33	95	0	159	10	20	20	48	1.79
1062067--1062132	19	3.4	19	87	6	89	10	16	27	45	1.80
1063695--1063730	14	2.6	14	95	0	63	33	0	22	44	1.53
1063857--1064155	19	16.7	19	82	14	395	14	21	17	46	1.84
1063857--1064169	52	5.9	52	87	10	447	14	22	17	46	1.84
1063857--1064169	110	2.9	110	93	5	522	14	22	17	46	1.84
1063914--1064169	33	7.2	33	84	11	298	14	21	17	46	1.83

Tables:   1   2   3   4   5   6