genome.fa.s686.2.7.7.80.10.50.1000.4.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: VEPZ01000686.1 Hibiscus syriacus cultivar Beakdansim tig00001340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1443669

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 696 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)
750998--751033	16	2.2	16	90	0	54	86	2	2	8	0.77
765235--765290	21	2.6	23	81	16	66	23	25	16	35	1.94
774340--774370	16	1.9	16	100	0	62	58	9	12	19	1.62
777600--777661	28	2.2	28	91	0	97	33	29	17	19	1.95
785013--785194	43	4.2	44	79	5	167	30	19	15	35	1.92
789497--789615	58	2.0	60	96	3	224	42	1	26	29	1.65
790530--790605	38	2.0	38	100	0	152	42	10	7	39	1.69
796846--796906	30	2.0	31	83	3	79	73	4	8	13	1.22
796998--797067	2	35.0	2	100	0	140	50	0	0	50	1.00
798556--798762	110	1.9	110	92	0	351	21	19	24	34	1.96
821140--821202	27	2.3	27	82	15	69	76	1	6	15	1.07
821069--821246	14	12.6	14	69	18	84	69	3	3	23	1.20
821083--821256	15	11.7	15	67	18	62	67	2	4	24	1.23
821338--821386	2	24.5	2	100	0	98	51	0	0	48	1.00
831118--831147	5	5.8	5	92	7	51	36	20	0	43	1.52
831118--831149	11	3.0	11	95	4	57	37	18	0	43	1.51
834823--834932	55	2.0	56	90	1	177	38	8	22	30	1.84
835017--835069	22	2.4	22	87	0	70	33	15	16	33	1.90
835632--835753	20	6.1	20	88	3	165	25	18	18	37	1.93
838695--838739	3	15.0	3	100	0	90	66	0	0	33	0.92
838862--839593	134	5.6	134	85	5	849	30	17	21	31	1.96
839595--839743	79	1.9	79	90	2	237	23	21	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
852107--852163	2	28.5	2	100	0	114	50	0	0	49	1.00
852211--852531	85	3.8	85	90	0	482	32	16	20	29	1.95
857003--857040	18	2.2	17	90	4	58	47	0	7	44	1.32
857981--858005	2	12.5	2	100	0	50	48	0	0	52	1.00
858675--858766	44	2.1	44	97	0	175	23	15	21	39	1.92
858681--858750	22	3.2	22	63	15	54	24	17	18	40	1.91
859248--859301	27	2.0	27	100	0	108	29	14	18	37	1.91
860631--860695	24	2.7	24	80	0	76	53	12	10	23	1.69
865780--865986	75	2.8	74	82	4	229	23	29	23	23	1.99
871686--871725	20	2.0	20	95	0	71	20	37	25	17	1.94
873724--873774	9	6.2	8	76	19	52	13	0	27	58	1.36
873726--873769	17	2.6	17	85	7	63	13	0	29	56	1.38
874371--874579	76	2.8	75	88	2	285	22	32	23	21	1.98
875500--875536	12	3.0	12	92	4	56	18	54	16	10	1.71
875571--875632	24	2.6	25	78	17	69	50	4	0	45	1.23
877931--877968	17	2.2	18	86	13	53	65	7	5	21	1.38
884821--884889	33	2.1	33	100	0	138	30	26	13	30	1.93
886475--886603	36	3.5	35	70	13	107	30	17	12	40	1.86
886438--886607	74	2.3	74	87	3	236	31	18	11	38	1.87
886511--886813	38	8.1	38	66	15	141	32	16	10	40	1.83
886620--887018	76	5.3	74	79	8	396	32	17	11	39	1.85
886511--886752	112	2.2	112	86	2	299	30	16	11	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
886827--886943	36	3.1	36	69	10	101	27	18	14	39	1.90
890420--890488	14	4.8	14	75	18	61	57	4	17	20	1.56
890419--890460	15	2.9	15	82	10	52	59	2	19	19	1.49
890436--890515	28	2.8	29	83	9	85	57	5	15	22	1.57
892207--892324	51	2.3	51	76	5	123	20	27	27	23	1.99
893637--893763	51	2.5	51	82	5	132	21	28	31	18	1.97
893921--893977	28	2.0	28	96	0	105	31	28	21	19	1.97
893952--893998	21	2.2	21	92	0	76	29	23	23	23	1.99
894247--894283	6	6.5	6	93	3	51	29	51	18	0	1.47
894853--894924	21	3.4	21	74	14	85	37	22	19	20	1.94
894850--894943	42	2.2	42	98	0	179	36	23	18	22	1.95
894874--894943	21	3.3	20	73	15	70	34	25	18	21	1.96
894902--895086	90	2.0	91	85	9	254	30	18	22	28	1.97
895047--895092	20	2.2	21	84	3	67	21	19	23	34	1.96
897377--897415	10	4.0	10	84	15	55	38	0	2	58	1.12
898461--898494	11	3.1	11	91	0	50	76	2	20	0	0.92
899366--899409	18	2.5	17	85	10	61	43	0	4	52	1.22
899369--899417	24	2.0	25	88	7	75	38	0	6	55	1.25
899705--899732	5	5.6	5	100	0	56	17	0	0	82	0.68
906157--906651	81	6.1	81	90	0	778	35	10	22	31	1.88
906157--906651	161	3.1	160	89	0	756	35	10	22	31	1.88
906157--906651	242	2.0	242	90	1	787	35	10	22	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
909810--909857	24	2.0	25	84	12	64	20	31	0	47	1.50
915482--915894	81	5.1	81	84	5	550	30	22	10	36	1.88
915482--915894	158	2.6	159	85	6	555	30	22	10	36	1.88
916313--916513	95	2.1	95	84	0	258	27	20	11	39	1.88
919040--919202	65	2.5	64	85	3	229	28	15	25	30	1.96
919150--919186	19	1.9	19	94	0	65	24	16	37	21	1.93
919044--919251	65	3.2	63	80	14	212	27	16	25	30	1.97
921704--921784	41	2.0	40	83	7	101	28	16	28	27	1.97
925089--925135	20	2.2	21	78	17	53	44	6	12	36	1.68
937868--937904	18	2.1	18	89	0	56	18	48	18	13	1.80
937905--938031	29	4.4	30	85	9	151	29	6	22	40	1.79
937905--938059	57	2.7	57	78	7	161	30	5	21	41	1.76
937905--938059	29	5.4	28	83	6	150	30	5	21	41	1.76
944392--944537	65	2.3	64	87	3	204	30	19	21	28	1.97
946354--946378	6	4.2	6	100	0	50	32	0	36	32	1.58
946746--946845	4	24.0	4	72	13	60	64	0	1	35	1.01
946746--946859	13	9.0	13	73	9	92	64	0	0	34	0.99
946758--946864	33	3.3	31	77	11	106	64	0	0	34	1.00
946893--946927	17	2.0	18	88	5	54	60	2	0	37	1.12
947116--947179	3	21.0	3	96	3	119	32	1	0	65	1.02
948888--949207	118	2.7	118	85	3	416	40	15	18	26	1.90
949087--949404	159	2.0	159	82	4	388	36	18	19	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
949240--949623	203	1.9	202	89	0	588	33	20	20	26	1.97
949611--949669	27	2.3	25	85	8	75	30	22	20	27	1.98
957407--957496	23	3.9	23	100	0	180	25	30	17	26	1.98
959242--959299	5	10.3	6	75	17	54	81	0	15	3	0.83
959198--959276	22	3.5	23	81	6	90	73	0	17	8	1.08
959244--959291	16	3.1	15	82	11	62	85	0	10	4	0.73
961073--961379	45	6.8	45	76	6	257	21	17	17	43	1.88
961075--961379	90	3.4	89	78	7	294	21	17	17	43	1.88
962041--962355	136	2.3	135	85	2	432	32	22	18	27	1.97
962233--962659	81	5.2	81	85	4	581	37	19	17	25	1.93
962232--962659	166	2.6	161	88	6	612	37	19	17	25	1.93
964815--964851	19	2.0	20	84	10	51	54	2	21	21	1.58
964561--964881	161	2.0	157	96	2	597	47	6	14	32	1.69
965192--965269	25	3.2	25	74	17	92	47	1	8	42	1.43
965201--965276	22	3.3	22	74	16	82	48	1	7	42	1.40
965192--965287	47	2.0	47	95	0	174	48	2	7	41	1.42
966370--966501	54	2.4	54	86	2	176	25	14	24	35	1.93
968752--968791	21	1.9	21	90	10	64	30	25	20	25	1.99
976972--977396	214	2.0	208	91	7	698	38	16	9	35	1.81
983948--983989	19	2.2	19	100	0	84	52	33	4	9	1.55
986565--986798	117	2.0	117	100	0	468	23	10	24	41	1.85
990216--990246	3	10.7	3	93	6	55	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990359--991022	133	5.0	134	81	4	702	30	14	21	33	1.93
990357--991022	266	2.5	266	82	5	792	30	14	21	33	1.93
993100--993425	163	2.0	163	99	0	643	23	20	15	39	1.91
999082--999122	21	2.0	21	100	0	82	68	2	0	29	1.03
1000745--1001250	180	2.8	178	75	10	440	41	10	11	37	1.75
1004284--1004637	196	1.8	194	88	4	543	44	11	7	36	1.69
1005816--1005855	20	2.0	20	85	5	53	30	5	35	30	1.79
1015810--1015839	13	2.3	13	94	0	51	10	13	0	76	1.01
1021192--1021230	20	2.0	20	84	0	51	23	5	23	48	1.70
1021384--1021463	21	3.8	21	72	8	65	16	25	36	22	1.94

Tables:   1   2   3   4   5   6