genome.fa.s8195.2.7.7.80.10.50.1000.6.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: VEPZ01008195.1 Hibiscus syriacus cultivar Beakdansim tig00110814_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1119982

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 689 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)
989443--989567	31	4.0	31	75	10	128	28	18	20	32	1.96
991319--991537	117	1.9	117	85	1	305	29	14	7	47	1.72
1000176--1000208	16	2.0	17	88	5	50	36	12	18	33	1.88
1002053--1002274	43	5.2	42	80	10	247	49	4	19	26	1.67
1002053--1002274	42	5.2	42	81	9	254	49	4	19	26	1.67
1002053--1002309	127	2.0	126	80	10	283	50	4	18	26	1.65
1002690--1002719	3	10.3	3	92	7	53	33	0	0	66	0.92
1002885--1002948	33	1.9	33	84	6	85	65	4	1	28	1.21
1003646--1003744	20	4.9	20	83	9	112	32	28	12	27	1.92
1003636--1003760	40	3.1	40	85	4	144	32	28	12	27	1.92
1003649--1003780	20	6.7	19	79	14	81	31	25	12	31	1.92
1004544--1004577	12	2.8	12	90	0	50	55	29	0	14	1.40
1007027--1007062	18	2.0	18	94	0	63	55	22	2	19	1.56
1008841--1008955	21	5.7	21	79	11	69	25	15	36	22	1.94
1008842--1008930	38	2.2	40	90	7	137	22	15	38	23	1.93
1009362--1009411	21	2.4	21	82	0	64	34	32	14	20	1.92
1009521--1009616	42	2.3	42	85	0	129	16	17	35	30	1.93
1010950--1010998	20	2.5	20	89	0	80	55	20	16	8	1.66
1011614--1011662	21	2.4	21	89	3	73	28	10	28	32	1.90
1015750--1015786	16	2.3	16	100	0	74	40	0	18	40	1.51
1017622--1017660	11	3.4	12	82	13	55	43	0	2	53	1.14
1017617--1017660	22	2.0	21	91	4	70	43	0	2	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019375--1019474	30	3.4	30	82	6	98	48	4	3	45	1.36
1020787--1020942	31	5.0	31	87	3	217	36	21	20	21	1.95
1020787--1020940	62	2.5	62	91	4	249	36	21	20	21	1.95
1021120--1021166	23	2.0	24	91	4	78	34	21	0	44	1.52
1024926--1025081	31	5.0	31	82	6	176	37	21	19	21	1.95
1024926--1025079	62	2.5	62	90	4	240	37	21	20	21	1.95
1025259--1025305	23	2.0	24	91	4	78	34	21	0	44	1.52
1025906--1025950	21	2.1	21	87	0	63	15	24	28	31	1.96
1029072--1029227	31	5.0	31	85	3	208	35	21	20	21	1.96
1029072--1029225	62	2.5	62	90	4	240	35	21	20	22	1.96
1029405--1029450	22	2.0	22	87	8	65	34	21	0	43	1.53
1030051--1030095	21	2.1	21	87	0	63	15	24	28	31	1.96
1030792--1030841	14	3.6	14	78	10	57	38	0	4	58	1.17
1040610--1040680	37	1.9	37	83	11	92	70	1	2	25	1.09
1041974--1042046	3	25.0	3	78	10	80	68	0	1	30	0.98
1042390--1043363	113	8.6	113	95	0	1691	28	20	14	36	1.92
1043804--1043856	22	2.4	22	87	0	79	37	13	15	33	1.86
1044228--1044335	54	2.0	54	90	0	171	22	23	16	37	1.93
1046356--1046579	114	2.0	114	92	0	376	29	21	16	33	1.95
1048177--1048241	32	2.0	32	93	0	112	18	13	21	46	1.84
1048854--1048910	8	7.2	8	82	11	73	0	17	1	80	0.79
1048853--1048917	15	4.2	15	82	5	76	0	18	1	80	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048853--1048910	16	3.7	16	88	9	84	0	17	1	81	0.78
1048854--1048921	23	2.8	24	86	13	95	0	19	1	79	0.81
1054201--1054240	18	2.2	20	82	13	50	65	2	2	30	1.19
1055031--1055132	48	2.2	47	78	13	113	65	1	2	29	1.18
1056511--1056620	3	37.0	3	83	5	143	67	0	0	31	0.97
1058056--1058097	21	2.0	21	95	0	75	30	14	7	47	1.71
1058092--1058191	33	3.0	33	92	0	164	33	7	15	45	1.73
1058237--1058267	15	2.1	15	93	0	53	22	6	9	61	1.50
1062786--1062834	16	3.2	16	72	16	59	26	34	2	36	1.68
1062777--1062834	29	2.0	29	100	0	116	27	31	3	37	1.73
1065323--1065379	27	2.1	28	96	3	107	24	29	3	42	1.71
1065667--1065745	39	2.0	39	100	0	158	34	20	12	32	1.90
1072307--1072384	39	2.0	39	94	2	138	28	47	15	8	1.75
1072274--1072384	45	2.7	40	86	10	145	28	49	14	7	1.70
1072374--1072485	29	3.9	29	87	0	143	22	38	23	16	1.93
1072504--1072593	45	2.0	45	97	0	171	21	34	20	24	1.96
1072583--1072626	23	1.9	23	100	0	88	22	22	27	27	1.99
1073674--1073742	15	4.9	14	72	12	61	49	7	1	42	1.39
1076540--1077329	60	13.0	60	70	20	480	40	1	12	45	1.50
1076629--1076783	73	2.1	72	79	12	156	38	0	12	48	1.42
1076716--1076785	25	3.1	22	79	16	63	38	0	11	50	1.39
1076737--1076784	14	3.6	14	81	16	66	35	0	16	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076540--1077429	120	7.4	120	76	15	817	40	1	12	45	1.49
1077232--1077350	21	5.9	19	66	17	53	41	0	11	47	1.40
1077095--1077480	218	1.8	206	92	6	646	41	0	11	47	1.39
1077379--1077463	39	2.2	40	93	2	145	41	0	8	50	1.32
1077450--1077496	23	2.0	24	91	8	78	36	0	17	46	1.48
1077450--1077495	14	3.6	14	78	21	57	34	0	17	47	1.48
1079696--1079734	15	2.7	15	92	4	62	53	7	0	38	1.30
1079929--1080045	39	2.8	39	77	13	110	47	10	2	40	1.51
1086265--1086327	21	2.9	21	83	4	63	20	38	25	15	1.92
1086309--1086348	21	1.9	21	89	0	62	25	40	25	10	1.86
1089805--1089837	13	2.5	13	90	9	50	3	42	0	54	1.15
1089939--1090005	33	2.0	33	97	0	125	26	28	11	32	1.92
1090125--1090163	18	2.1	19	95	4	71	25	17	56	0	1.41
1090179--1090260	29	2.8	29	86	0	110	14	21	39	24	1.91
1090652--1090714	30	2.1	29	85	8	81	38	11	7	42	1.70
1093895--1093951	23	2.5	24	72	16	57	50	1	8	38	1.44
1098887--1098958	37	2.0	36	92	7	121	19	19	4	56	1.57
1099247--1099298	22	2.4	22	78	9	61	63	1	1	32	1.16
1099247--1099306	23	2.8	21	78	14	59	61	1	1	35	1.16
1113328--1113397	26	2.7	26	88	0	95	22	37	22	17	1.94
1115067--1115127	21	3.2	21	63	29	55	32	4	19	42	1.73
1115059--1115180	35	3.4	37	82	10	155	33	4	17	44	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119599--1119705	35	3.1	35	85	6	139	30	4	18	45	1.70

Tables:   1   2   3   4   5   6

The End!