genome.fa.s121.2.7.7.80.10.50.1000.5.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: VEPZ01000121.1 Hibiscus syriacus cultivar Beakdansim tig00000218_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2099483

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  5  of  10  ( 1170 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)
906772--907149	113	3.4	113	92	1	589	29	19	13	37	1.90
906772--907210	226	2.0	215	86	4	608	29	18	14	37	1.91
910554--910586	2	16.5	2	100	0	66	51	0	0	48	1.00
911070--911134	28	2.3	29	81	7	71	41	0	3	55	1.15
912882--912989	3	36.0	3	78	9	96	62	1	0	34	1.12
912900--912989	36	2.5	37	81	5	121	65	1	1	32	1.07
914376--914431	23	2.4	23	79	5	69	55	0	3	41	1.17
914353--914427	30	2.4	30	75	20	73	49	0	2	48	1.15
914397--914477	21	4.0	20	76	7	65	54	0	1	44	1.08
914680--914757	41	1.9	41	94	0	138	46	2	8	42	1.49
914779--914805	2	13.5	2	100	0	54	51	0	0	48	1.00
918945--919060	60	1.9	60	81	6	137	50	5	3	40	1.41
919215--919265	2	25.5	2	95	0	93	47	0	1	50	1.12
920037--920071	3	11.7	3	93	0	61	62	0	2	34	1.10
928335--928375	16	2.6	16	80	0	55	14	14	17	53	1.73
929171--929214	17	2.6	17	77	0	52	56	2	0	40	1.11
935236--935285	19	2.6	19	93	0	82	40	4	16	40	1.67
942249--942452	101	2.0	101	97	0	381	44	22	9	24	1.82
949673--949711	18	2.2	18	85	0	51	74	5	7	12	1.20
950009--950069	24	2.5	24	78	0	77	49	18	18	14	1.80
953829--953894	31	2.1	31	100	0	132	37	15	25	21	1.92
955552--955593	18	2.3	18	95	0	75	30	2	0	66	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
956166--956211	22	2.1	22	84	8	58	52	0	2	45	1.13
958202--958251	7	6.6	7	78	17	55	82	4	2	12	0.90
958214--958251	15	2.5	15	95	0	67	84	5	0	10	0.77
958325--958370	2	23.5	2	95	4	85	50	0	0	50	1.00
959446--959494	14	3.2	15	82	8	55	61	4	0	34	1.15
959480--959665	36	5.4	34	77	14	166	44	7	3	44	1.50
959533--959707	69	2.7	61	79	10	170	45	7	5	41	1.54
959642--959707	25	2.6	25	85	7	89	46	7	4	40	1.52
960365--961432	84	12.9	80	83	7	1217	24	18	22	35	1.96
960365--961432	160	6.4	160	83	7	1217	24	18	22	35	1.96
964053--964160	54	2.0	54	100	0	216	25	22	16	35	1.95
965146--965203	19	3.0	18	77	10	53	81	3	3	12	0.95
965161--965203	21	2.0	21	86	8	61	81	2	2	13	0.89
966405--966470	23	2.9	23	80	8	80	28	24	25	21	1.99
972761--972843	28	2.9	28	87	5	114	30	45	0	24	1.53
986012--986230	116	1.9	111	85	4	294	30	22	21	25	1.99
986931--987918	44	22.3	44	67	3	152	27	22	20	29	1.98
986114--988000	133	14.5	133	92	3	3103	27	22	20	29	1.98
987955--988102	50	3.0	50	92	2	255	27	17	26	28	1.98
987937--988385	224	2.0	225	98	1	875	31	19	22	26	1.98
988177--988328	50	3.0	50	93	0	268	28	17	26	27	1.97
988507--988591	29	2.9	29	89	3	127	29	45	0	24	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990704--990763	27	2.2	27	96	0	111	21	26	20	31	1.98
991325--991393	23	3.0	23	89	0	102	28	24	26	20	1.99
991973--992110	63	2.1	67	76	14	146	23	18	20	36	1.94
993413--993457	5	9.0	5	92	0	63	57	0	4	37	1.19
993459--993511	14	3.4	15	80	12	54	60	3	0	35	1.15
993507--993580	33	2.4	31	78	14	80	44	5	1	48	1.34
993550--993722	62	2.7	62	81	11	206	45	6	4	43	1.50
993497--993787	39	8.5	36	73	20	198	46	6	3	43	1.46
993659--993722	25	2.5	25	85	7	76	46	3	4	45	1.39
993773--993840	2	35.0	2	94	5	122	50	0	0	50	1.00
994751--994777	3	9.0	3	100	0	54	66	0	0	33	0.92
994776--994809	3	11.3	3	100	0	68	35	0	0	64	0.94
996988--997402	65	6.4	65	90	1	627	33	24	13	28	1.93
997626--997778	65	2.4	65	89	2	227	32	15	19	33	1.93
997782--997987	65	3.2	64	84	4	254	28	15	24	32	1.95
997676--997894	116	1.9	116	87	1	323	31	16	19	32	1.94
1005205--1005262	20	2.8	21	94	2	100	60	10	13	15	1.59
1005805--1006136	32	10.4	32	75	17	305	54	11	0	33	1.40
1005842--1005904	26	2.4	26	100	0	126	58	17	0	23	1.38
1005943--1005984	22	1.9	22	100	0	84	47	14	2	35	1.57
1005945--1005993	22	2.2	22	85	3	62	53	14	2	30	1.52
1007321--1007368	3	16.0	3	100	0	96	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009266--1009303	2	19.0	2	94	0	67	47	0	0	52	1.00
1010934--1011438	167	3.0	166	98	0	976	38	5	7	47	1.57
1012847--1012883	17	2.1	19	85	10	51	24	5	0	70	1.08
1012880--1012936	23	2.3	26	85	11	77	15	15	3	64	1.42
1013753--1013792	14	2.7	15	84	7	55	52	2	0	45	1.14
1013949--1013980	2	16.0	2	100	0	64	50	0	0	50	1.00
1015151--1015188	11	3.2	12	81	11	51	13	0	23	63	1.30
1018732--1018794	24	2.7	24	74	13	60	47	0	3	49	1.17
1018773--1018833	20	3.1	20	90	4	88	52	1	0	45	1.10
1022865--1023028	64	2.6	64	81	5	163	33	19	21	25	1.97
1026100--1026215	21	5.6	21	65	18	55	34	24	18	22	1.96
1026203--1026255	20	2.7	20	82	5	63	45	22	16	15	1.85
1026264--1026477	20	10.6	20	77	6	189	36	22	18	21	1.95
1026264--1026475	41	5.2	41	86	1	293	37	22	18	21	1.94
1027003--1027081	20	3.9	21	86	5	94	51	17	18	11	1.75
1027058--1027138	33	2.5	33	89	0	126	46	20	20	11	1.81
1027134--1027217	19	4.7	19	77	14	97	13	21	20	45	1.84
1027191--1027276	37	2.5	34	77	9	93	15	24	16	44	1.86
1027134--1027250	52	2.2	52	86	1	171	15	23	18	42	1.88
1028972--1029351	94	4.1	94	91	1	593	22	10	18	48	1.79
1029452--1029537	19	4.8	19	76	13	92	50	24	16	9	1.74
1029582--1029670	20	4.3	20	87	5	124	22	17	21	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029583--1029662	42	1.9	42	92	0	133	23	18	20	37	1.94
1030154--1030258	21	5.0	21	74	3	95	20	37	19	22	1.95
1030151--1030261	42	2.6	42	78	5	118	20	37	18	22	1.94
1031615--1031650	14	2.6	14	90	0	54	30	0	22	47	1.52
1031776--1032050	20	13.8	20	94	1	462	18	24	24	32	1.98
1035351--1035402	20	2.6	20	87	6	79	19	19	23	38	1.93
1035491--1035684	21	9.6	20	77	10	180	18	18	26	36	1.94
1035512--1035684	41	4.2	41	93	0	274	17	17	26	37	1.93
1035512--1035706	82	2.4	82	87	3	259	18	17	26	36	1.93
1035693--1035747	20	2.8	20	91	5	85	12	18	23	45	1.83
1037126--1037494	20	18.5	20	85	5	460	34	26	18	20	1.96
1039038--1039127	14	5.7	14	72	23	63	44	22	24	8	1.81
1039030--1039144	33	3.5	33	90	0	194	46	20	23	9	1.79
1039033--1039149	19	6.9	19	70	24	93	45	20	23	10	1.82
1039161--1039215	14	3.6	14	73	21	56	9	25	23	41	1.83
1039145--1039215	33	2.2	33	94	0	124	8	22	25	43	1.81
1039156--1039237	33	2.5	33	89	2	119	9	25	21	42	1.84
1039168--1039256	20	4.8	20	72	19	75	12	24	19	43	1.85
1039336--1039406	33	2.2	33	92	0	115	47	18	22	11	1.80
1039585--1039639	22	2.5	22	81	0	74	20	16	40	23	1.91
1039785--1039977	20	9.6	20	80	5	210	19	19	25	35	1.96
1039785--1039977	60	3.2	60	81	0	242	19	19	25	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040033--1040084	20	2.6	20	96	0	95	21	13	26	38	1.90
1042038--1042097	29	2.1	29	96	0	111	25	10	26	38	1.87
1043987--1044029	14	2.9	15	72	6	52	46	6	16	30	1.73
1044017--1044055	20	2.0	20	100	0	78	46	5	5	43	1.48
1044373--1044443	23	3.3	22	81	13	76	54	0	0	45	0.99
1044398--1044476	30	2.6	32	80	15	87	53	1	0	45	1.08
1044414--1044525	27	4.1	26	71	21	79	52	1	0	44	1.17
1044499--1044547	21	2.3	20	80	13	53	53	0	0	46	1.00
1044446--1044536	27	3.6	26	72	18	68	50	2	1	46	1.20
1044428--1044544	51	2.2	52	82	11	143	52	1	0	45	1.17

Tables:   1   2   3   4   5   6   7   8   9   10