genome.fa.s8010.2.7.7.80.10.50.1000.5.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: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3152856

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  5  of  14  ( 1680 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)
888857--888911	22	2.5	22	81	0	74	20	16	40	23	1.91
889057--889250	20	9.6	20	82	5	221	19	19	25	35	1.95
889057--889250	60	3.2	60	83	0	253	19	19	25	35	1.95
889237--889319	21	4.0	21	73	6	78	25	16	24	33	1.96
889217--889315	42	2.4	43	77	11	100	21	18	23	37	1.94
890681--890712	16	2.0	16	93	0	55	25	34	21	18	1.96
890772--890824	20	2.7	20	94	2	90	18	18	30	32	1.96
898710--898739	16	1.9	15	93	6	51	46	0	10	43	1.37
907214--907289	38	2.0	38	100	0	152	13	15	26	44	1.83
915619--915661	21	2.0	22	95	4	79	27	13	11	46	1.78
916773--916797	12	2.1	12	100	0	50	60	0	0	40	0.97
918201--918228	13	2.2	13	100	0	56	78	0	14	7	0.95
918260--918335	37	2.1	38	85	7	104	48	6	1	43	1.37
918224--918434	36	5.8	35	74	16	114	45	5	3	45	1.42
918326--918462	39	3.6	38	88	6	190	44	5	2	46	1.42
918454--918637	36	4.9	37	77	13	164	45	5	3	44	1.46
918516--918682	40	4.3	41	75	17	117	44	7	4	43	1.52
919243--919808	84	6.9	82	75	9	397	25	20	24	30	1.99
919292--919858	165	3.4	164	82	4	660	25	20	24	30	1.99
919292--919708	81	5.0	83	70	16	258	25	20	25	29	1.99
919235--919773	165	3.3	165	81	3	674	25	19	24	30	1.98
925879--925909	14	2.2	14	94	0	53	77	0	0	22	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
925911--926015	36	2.8	37	74	8	97	47	4	3	43	1.42
925949--926030	37	2.3	35	77	8	85	45	6	2	46	1.41
925993--926082	36	2.5	36	84	10	105	40	5	2	52	1.37
926026--926097	37	2.0	36	86	8	101	43	5	2	48	1.40
926152--926284	37	3.6	37	81	11	123	46	6	4	42	1.48
926231--926329	50	2.1	49	81	11	116	44	5	3	47	1.40
926231--926304	40	1.9	39	81	8	89	44	5	2	47	1.40
931808--931842	2	17.5	2	100	0	70	51	0	0	48	1.00
953057--953253	28	7.0	29	81	6	165	32	1	16	49	1.55
953098--953269	83	2.0	85	82	6	208	34	2	14	48	1.57
960352--960396	7	6.4	7	80	10	56	13	37	26	22	1.91
960347--960388	21	2.0	21	100	0	84	14	42	23	19	1.87
960397--960543	29	5.1	29	76	14	133	31	1	17	49	1.55
984022--984048	8	3.4	8	100	0	54	62	22	14	0	1.31
985206--985267	21	3.0	21	83	6	83	14	29	37	19	1.91
986723--986774	20	2.6	21	85	8	65	32	13	3	50	1.60
987252--987309	26	2.2	26	93	6	100	3	27	3	65	1.25
988708--988765	20	2.9	20	87	5	82	13	25	36	24	1.92
994428--994550	23	5.8	21	73	16	94	30	23	17	28	1.97
994428--994552	44	2.9	43	81	9	148	29	24	17	28	1.97
1004653--1004683	14	2.2	14	100	0	62	51	6	12	29	1.65
1036400--1036495	27	3.6	27	87	8	144	29	10	15	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040165--1040259	27	3.6	27	91	2	149	30	9	15	44	1.79
1040963--1041266	54	5.6	54	92	0	466	32	18	18	30	1.95
1041615--1041657	22	2.0	22	85	0	59	20	25	13	39	1.90
1043821--1043864	20	2.1	21	83	4	54	45	29	2	22	1.65
1050440--1050478	13	2.9	14	84	7	62	38	12	0	48	1.42
1051537--1051575	21	1.9	21	84	5	53	48	0	10	41	1.37
1051868--1051934	23	2.9	23	84	4	91	55	25	2	16	1.55
1054481--1054633	37	4.4	36	71	17	119	37	13	21	28	1.91
1054512--1054664	64	2.3	65	87	5	211	37	13	19	29	1.90
1054581--1054845	36	7.9	36	65	20	119	36	14	19	29	1.91
1054450--1054832	198	1.9	200	81	7	467	36	13	20	29	1.91
1054652--1054847	100	1.9	102	89	4	308	38	14	18	28	1.90
1054972--1055752	106	7.4	106	91	0	1240	23	17	24	34	1.96
1056850--1057884	249	4.2	246	89	3	1454	24	21	24	29	1.99
1056821--1057884	165	6.4	165	84	3	1311	24	21	24	29	1.99
1064657--1064739	32	2.5	33	88	7	125	40	37	9	12	1.75
1065076--1065131	27	2.1	27	100	0	112	21	17	21	39	1.93
1065083--1065137	27	2.0	27	92	0	92	25	20	14	40	1.90
1066845--1066910	28	2.3	28	81	2	78	36	12	10	40	1.77
1069876--1069941	33	2.0	33	93	3	114	21	13	24	40	1.89
1077784--1077825	21	2.0	20	86	4	57	38	14	7	40	1.73
1084549--1084607	31	1.9	31	89	0	91	38	8	10	42	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084619--1084668	22	2.3	22	83	10	59	58	6	0	36	1.23
1084622--1085362	54	13.5	54	78	11	756	52	12	0	33	1.46
1084756--1084809	14	3.6	14	72	18	54	57	5	0	37	1.22
1084734--1085367	32	22.7	32	70	26	484	52	13	0	33	1.47
1084622--1085436	166	4.9	166	75	14	585	52	12	0	33	1.45
1084798--1084840	22	2.0	22	100	0	86	51	13	0	34	1.42
1084800--1084848	22	2.2	22	88	3	71	55	14	0	30	1.40
1084852--1084894	22	2.0	22	100	0	86	51	13	0	34	1.42
1084854--1084902	22	2.2	22	88	3	71	55	14	0	30	1.40
1084622--1085436	220	3.7	220	96	0	1470	52	12	0	33	1.45
1085018--1085060	22	2.0	22	100	0	86	51	13	0	34	1.42
1085020--1085068	22	2.2	22	88	3	71	55	14	0	30	1.40
1085072--1085114	22	2.0	22	90	0	68	46	13	4	34	1.65
1085130--1085203	22	3.2	22	70	16	60	55	17	0	27	1.42
1085238--1085280	22	2.0	22	100	0	86	51	13	0	34	1.42
1085240--1085288	22	2.2	22	88	3	71	55	14	0	30	1.40
1084622--1085436	80	9.9	85	77	13	469	52	12	0	33	1.45
1085417--1085532	15	7.5	15	78	16	121	51	2	0	45	1.14
1085337--1085475	46	3.0	45	74	13	122	53	10	0	36	1.35
1085419--1085560	44	3.5	42	72	16	129	49	3	0	47	1.18
1085459--1085532	29	2.5	30	93	2	123	50	0	0	50	1.00
1087733--1087761	15	1.9	15	100	0	58	48	6	13	31	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094987--1095024	2	19.0	2	100	0	76	50	0	0	50	1.00
1095182--1095298	59	2.0	59	83	9	150	42	6	10	40	1.65
1096067--1096170	41	2.9	35	75	19	97	33	3	24	38	1.73
1097715--1097751	19	1.9	19	88	0	56	40	5	0	54	1.24
1098788--1098819	2	16.0	2	100	0	64	50	0	0	50	1.00
1119828--1119915	45	2.0	45	86	0	122	30	25	23	20	1.98
1124705--1124756	2	26.0	2	100	0	104	50	0	0	50	1.00
1135426--1135455	15	2.0	15	93	0	51	20	6	10	63	1.47
1143744--1143794	23	2.2	22	82	6	57	50	17	23	7	1.72
1144588--1144647	29	2.1	28	87	9	86	46	8	13	31	1.72
1149208--1149266	29	2.0	29	100	0	118	49	13	13	23	1.78
1155203--1155288	35	2.5	35	84	0	100	40	20	1	37	1.61
1155257--1155299	21	2.0	21	100	0	86	46	13	0	39	1.44
1155422--1155455	16	2.0	18	88	11	54	26	2	5	64	1.30
1155917--1156162	130	1.9	128	92	1	411	36	13	14	35	1.85
1158294--1158341	21	2.3	21	92	0	78	31	37	6	25	1.81
1161777--1161823	24	2.0	24	86	0	67	6	34	2	57	1.36
1163443--1163490	21	2.3	21	92	0	78	31	37	6	25	1.81
1163992--1164022	15	2.1	15	100	0	62	38	6	12	41	1.69
1167709--1167756	18	2.7	18	96	0	87	35	12	18	33	1.89
1168551--1168584	11	3.2	11	87	8	52	70	2	0	26	1.01
1168745--1169166	212	2.0	212	92	0	702	35	13	11	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169310--1169365	20	2.8	20	78	10	60	25	3	3	67	1.22
1169322--1169366	21	2.2	20	88	4	63	22	4	2	71	1.15
1169407--1169445	13	2.9	13	85	7	51	48	0	2	48	1.15
1169893--1169952	17	3.5	17	72	2	57	48	1	5	45	1.34
1170169--1170221	24	2.2	25	82	3	63	66	5	5	22	1.35
1173304--1173338	18	1.9	18	94	0	61	31	5	14	48	1.67
1179482--1179519	11	3.5	11	85	0	58	81	2	2	13	0.90
1188046--1188075	6	5.0	6	100	0	60	0	50	16	33	1.46
1190401--1190478	32	2.5	32	82	2	95	34	5	23	37	1.77
1190500--1190568	32	2.2	32	86	0	93	30	20	26	23	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14