genome.fa.s851.2.7.7.80.10.50.1000.29.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  29  of  31  ( 3618 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)
6772237--6772548	155	2.0	157	98	1	610	33	20	11	34	1.88
6773575--6773642	29	2.4	27	83	7	82	48	14	4	32	1.64
6775894--6775942	20	2.5	19	86	3	62	65	2	2	30	1.15
6779434--6779482	24	2.0	24	92	7	82	30	8	14	46	1.73
6781901--6781998	51	1.9	51	95	0	178	17	26	6	50	1.69
6783281--6783308	12	2.3	12	100	0	56	32	32	10	25	1.90
6787859--6788270	203	2.0	205	96	2	767	36	21	16	25	1.94
6788851--6788901	18	2.8	18	96	0	93	37	13	15	33	1.87
6800055--6800094	21	1.9	21	90	10	64	32	10	5	52	1.56
6802076--6802166	45	2.0	46	89	2	139	27	18	26	27	1.98
6806603--6806637	15	2.3	15	90	9	54	45	0	0	54	0.99
6817847--6817909	20	3.0	20	81	9	72	20	33	25	20	1.97
6817849--6817930	23	3.7	23	90	4	116	20	32	25	20	1.97
6821406--6821461	29	1.9	29	85	7	78	30	0	5	64	1.16
6825772--6825907	59	2.3	60	92	1	220	33	18	15	33	1.92
6827590--6827638	23	2.2	23	85	3	64	71	6	0	22	1.08
6828064--6828111	21	2.3	21	92	0	78	20	22	27	29	1.99
6828125--6828196	21	3.5	21	78	14	87	29	29	18	23	1.97
6828148--6828222	19	3.8	19	77	13	80	28	24	17	30	1.97
6828127--6828202	40	1.9	40	97	0	143	28	27	18	25	1.98
6828126--6828222	21	4.8	20	76	12	83	27	25	18	27	1.98
6828211--6828258	23	2.2	22	85	7	62	18	22	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6828877--6828902	6	4.3	6	100	0	52	0	15	50	34	1.45
6828995--6829140	21	6.9	21	87	7	197	39	17	20	21	1.92
6828988--6829116	63	2.1	61	94	2	222	37	17	20	23	1.94
6829105--6829175	34	2.1	35	91	2	117	39	16	22	21	1.92
6831836--6831875	21	1.9	21	89	0	62	22	20	5	52	1.65
6831836--6831881	21	2.1	21	84	4	56	23	19	6	50	1.71
6837452--6837600	3	47.7	3	87	10	210	2	35	0	62	1.07
6838967--6839089	3	40.7	3	92	8	189	65	0	34	0	0.93
6839342--6839367	3	8.7	3	100	0	52	30	0	0	69	0.89
6842263--6842902	22	29.5	22	80	10	610	42	0	10	46	1.41
6842263--6842902	44	14.8	43	82	9	709	42	0	10	46	1.41
6842925--6842984	31	1.9	31	93	0	102	45	8	5	41	1.56
6844261--6844298	20	1.9	20	100	0	76	31	21	23	23	1.98
6845788--6845847	23	2.6	23	81	0	84	16	23	25	35	1.95
6846716--6846772	20	2.8	20	84	7	71	24	24	15	35	1.95
6846923--6846974	20	2.7	20	93	3	88	21	28	19	30	1.97
6848874--6848922	21	2.3	21	100	0	98	48	24	4	22	1.67
6857970--6858035	3	22.0	3	90	0	105	37	0	0	62	0.96
6870797--6870879	7	11.9	7	75	16	75	81	0	18	0	0.68
6870800--6870879	28	2.9	27	80	12	90	82	0	17	0	0.67
6870797--6870879	41	2.1	40	85	12	111	81	0	18	0	0.68
6870801--6870880	26	3.0	26	84	12	92	81	0	18	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6870801--6870879	18	4.3	18	80	7	88	82	0	17	0	0.67
6872024--6872335	83	3.7	83	91	3	453	26	12	22	38	1.90
6872024--6872335	175	1.8	166	87	6	462	26	12	22	38	1.90
6872165--6872376	92	2.3	92	85	3	293	31	13	21	33	1.92
6873099--6873844	113	6.7	113	90	1	979	37	14	19	28	1.91
6873337--6873381	24	1.9	23	82	13	56	48	6	26	17	1.72
6874080--6874154	3	25.0	3	91	0	114	38	0	0	61	0.96
6874087--6874163	12	5.3	15	83	16	69	41	0	0	58	0.98
6874084--6874163	18	4.3	19	84	12	112	41	0	0	58	0.98
6875474--6875524	13	3.9	13	77	10	50	41	3	0	54	1.19
6882415--6882471	24	2.4	24	96	0	105	40	3	19	36	1.69
6891836--6891890	23	2.6	20	76	18	58	43	5	1	49	1.36
6891844--6891907	23	2.6	23	80	16	67	42	3	1	53	1.26
6891903--6891947	19	2.6	16	80	19	54	35	2	2	60	1.22
6892422--6892470	21	2.3	21	85	0	71	57	0	0	42	0.99
6897330--6897427	50	2.0	49	97	2	187	38	23	14	23	1.91
6903056--6903100	15	2.9	16	83	3	56	53	2	4	40	1.33
6904249--6904342	49	1.9	49	88	0	143	17	36	31	14	1.90
6905580--6905615	2	18.5	2	88	5	56	52	0	2	44	1.15
6908104--6908138	2	17.5	2	100	0	70	51	0	0	48	1.00
6911676--6911706	15	2.1	15	93	0	53	45	0	0	54	0.99
6915362--6915428	20	3.4	19	80	10	64	41	7	17	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6915628--6915665	20	1.9	20	94	0	67	44	15	0	39	1.47
6917037--6917085	19	2.4	21	86	6	66	32	12	4	51	1.58
6917922--6917973	21	2.5	21	93	0	86	26	19	17	36	1.94
6918290--6918327	20	1.9	20	94	0	67	44	7	13	34	1.72
6918579--6918624	20	2.2	20	92	3	74	47	10	2	39	1.51
6922534--6922608	30	2.5	30	78	10	80	54	8	13	24	1.65
6929271--6929333	30	2.1	30	96	0	117	7	19	44	28	1.78
6932695--6932896	41	4.9	41	98	0	377	20	24	26	28	1.99
6933014--6933039	3	8.7	3	100	0	52	0	34	65	0	0.93
6934452--6934486	15	2.5	15	90	9	56	65	0	0	34	0.93
6945291--6945318	2	14.0	2	100	0	56	50	0	0	50	1.00
6955133--6955227	43	2.2	43	86	5	129	26	17	28	27	1.98
6955148--6955261	43	2.7	43	86	2	140	30	15	24	28	1.96
6955780--6955821	17	2.4	18	84	4	59	28	2	4	64	1.26
6958168--6958238	29	2.4	29	100	0	142	23	9	26	39	1.86
6959340--6959666	162	2.0	165	98	1	633	35	13	11	40	1.80
6960258--6960563	49	6.2	49	76	5	260	28	16	28	27	1.97
6960269--6960535	147	1.8	148	83	4	360	29	14	29	26	1.95
6968696--6968738	6	7.2	6	89	0	59	32	16	44	6	1.74
6975540--6975604	24	2.7	24	83	9	71	32	27	16	23	1.96
6975562--6975609	24	2.0	24	100	0	96	29	29	16	25	1.97
6978256--6978300	21	2.1	21	84	8	56	37	15	2	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6981548--6981617	29	2.5	25	82	17	77	22	7	8	61	1.49
6982243--6982574	131	2.5	131	85	0	432	33	9	16	40	1.82
6984432--6984503	29	2.4	30	81	9	85	20	25	22	31	1.98
6984507--6984535	14	2.1	14	100	0	58	20	51	20	6	1.70
6992849--6993423	288	2.0	286	97	2	1093	41	12	14	31	1.83
6993455--6993491	18	2.0	19	89	5	58	29	2	27	40	1.70
7005139--7005184	23	2.0	23	82	0	56	54	6	13	26	1.62
7010042--7010077	17	2.1	18	90	10	58	44	2	0	52	1.15
7010047--7010085	17	2.3	17	86	8	53	51	2	0	46	1.14
7010180--7010273	2	47.5	2	97	2	181	48	0	0	51	1.00
7013503--7013585	35	2.4	35	91	0	130	42	22	0	34	1.54
7013975--7014221	129	1.9	130	91	0	406	36	14	13	35	1.86
7014548--7014606	28	2.1	28	83	3	73	47	1	3	47	1.29
7014684--7014717	16	2.0	18	88	11	54	64	5	2	26	1.30
7016838--7016870	15	2.2	16	89	10	52	72	6	3	18	1.18
7018194--7018281	3	30.3	3	86	11	103	59	0	0	40	0.98
7018202--7018281	17	4.6	17	85	1	97	58	0	0	41	0.98
7018199--7018279	14	5.9	14	85	7	112	59	0	0	40	0.98
7018427--7018698	124	2.3	119	85	6	343	24	19	16	40	1.91
7018645--7018736	36	2.6	36	94	0	157	18	20	10	50	1.77
7018680--7018736	17	3.2	17	68	18	53	19	21	8	50	1.74
7018680--7019109	113	3.9	108	83	7	463	29	17	13	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7019828--7020152	114	2.9	115	91	2	534	30	20	16	33	1.94
7021409--7021472	1	64.0	1	77	0	65	0	10	0	89	0.50
7021412--7021476	6	10.5	6	87	9	78	0	12	0	87	0.54
7021411--7021470	7	8.9	7	87	10	81	0	11	0	88	0.52
7021409--7021476	19	3.7	17	85	14	91	0	11	0	88	0.52
7034281--7034332	3	17.0	3	96	4	95	65	0	0	34	0.93
7035500--7035873	187	2.0	182	83	5	466	38	17	10	32	1.85
7037331--7037397	21	3.2	21	67	26	61	22	20	26	29	1.99
7037348--7037457	20	5.4	20	69	20	84	20	22	23	32	1.98
7037331--7037518	41	4.6	41	86	2	238	23	21	23	31	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31