genome.fa.s8243.2.7.7.80.10.50.1000.19.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   

This is table  19  of  49  ( 5786 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)
3704397--3704558	64	2.5	65	80	5	177	32	17	23	26	1.96
3704566--3704603	20	1.9	20	88	0	58	34	18	21	26	1.96
3705709--3705748	2	20.0	2	100	0	80	50	0	0	50	1.00
3708220--3708287	34	2.0	34	83	13	86	23	13	20	42	1.87
3711448--3711474	11	2.5	11	100	0	54	40	0	7	51	1.30
3712629--3712662	17	2.0	17	88	0	50	47	2	0	50	1.16
3722411--3722435	6	4.2	6	100	0	50	16	32	20	32	1.94
3727872--3727903	16	2.0	16	93	0	55	34	25	6	34	1.81
3729564--3729613	26	1.9	26	95	0	91	54	4	4	38	1.38
3731566--3731606	17	2.4	17	100	0	82	34	19	21	24	1.97
3732387--3732434	15	3.1	15	78	6	51	50	2	2	45	1.25
3741362--3741406	21	2.1	21	87	0	63	28	13	24	33	1.93
3741471--3741521	21	2.4	21	80	6	59	19	19	27	33	1.96
3742143--3742181	20	1.9	19	85	10	51	58	20	2	17	1.50
3745498--3745536	19	2.1	19	100	0	78	20	10	20	48	1.78
3750034--3750106	20	3.6	19	75	15	67	32	12	24	30	1.92
3751404--3751732	164	2.0	165	99	0	651	38	9	8	42	1.68
3757523--3757555	17	1.9	17	93	0	57	54	3	0	42	1.15
3757535--3757617	32	2.6	31	81	9	105	48	6	4	40	1.49
3762579--3762635	21	2.7	22	86	5	82	29	15	26	28	1.96
3762749--3762780	6	5.3	6	100	0	64	34	46	18	0	1.49
3763373--3763494	41	3.0	41	82	8	128	37	20	22	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3763401--3763472	20	3.5	20	67	3	63	40	20	22	16	1.91
3764114--3764203	45	2.0	45	100	0	180	31	20	6	42	1.77
3764159--3764416	130	2.0	131	97	2	493	32	21	11	34	1.89
3768903--3768938	16	2.2	16	100	0	72	13	22	22	41	1.89
3770013--3770046	13	2.6	13	100	0	68	50	14	8	26	1.72
3779184--3779441	128	2.0	129	98	1	500	26	16	24	32	1.96
3793397--3793505	40	2.8	39	92	2	175	34	15	11	37	1.84
3793397--3793512	38	3.0	39	92	2	180	33	14	12	39	1.83
3793515--3793553	18	2.2	18	86	4	53	25	12	15	46	1.81
3804400--3804506	36	2.9	37	88	2	153	42	12	11	33	1.78
3805038--3805079	2	21.5	2	90	4	68	47	0	2	50	1.14
3805082--3805142	26	2.3	27	83	11	72	29	3	1	65	1.18
3805092--3805182	28	3.1	29	77	17	100	25	1	0	73	0.90
3805092--3805179	26	3.6	25	74	22	80	26	1	0	72	0.91
3805097--3805183	29	3.1	28	75	14	81	25	1	0	73	0.90
3805149--3805218	10	7.0	9	75	16	50	15	5	0	78	0.93
3805162--3805228	27	2.5	27	76	11	68	14	8	0	76	1.02
3805162--3805234	37	1.9	38	81	13	89	15	9	0	75	1.04
3805648--3805717	32	2.2	32	84	5	88	44	8	8	38	1.66
3805942--3805995	28	1.9	28	88	7	83	55	11	3	29	1.52
3806319--3806353	17	2.0	18	88	5	54	42	0	0	57	0.99
3815226--3815264	19	2.0	20	95	5	71	20	25	10	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3817182--3817218	18	2.1	18	89	0	56	16	0	32	51	1.45
3819917--3820030	58	1.9	59	82	5	142	14	16	19	49	1.80
3821300--3821331	14	2.2	15	94	5	57	31	0	18	50	1.48
3823272--3823414	53	2.7	53	96	0	259	23	15	14	46	1.83
3832799--3832843	21	2.1	21	87	0	63	28	20	4	46	1.69
3840460--3840617	60	2.7	59	85	3	192	41	3	20	35	1.68
3840459--3840548	31	3.0	31	71	12	96	41	5	20	33	1.75
3840439--3840618	59	3.0	60	82	4	170	40	3	21	35	1.70
3844704--3844765	21	3.0	21	75	13	65	20	20	22	35	1.96
3844884--3844950	21	3.2	21	93	0	98	20	17	31	29	1.96
3848821--3848896	36	2.1	36	85	7	100	47	1	3	47	1.29
3849262--3849303	19	2.1	21	91	8	70	54	11	4	28	1.57
3852747--3852997	123	2.0	123	85	3	335	15	21	23	38	1.92
3861016--3861068	20	2.7	20	81	0	61	33	11	26	28	1.91
3862372--3862409	4	9.5	4	94	0	67	47	23	2	26	1.65
3873526--3873656	60	2.2	60	84	2	165	34	16	21	28	1.94
3875537--3875594	25	2.2	26	79	11	66	48	6	17	27	1.72
3875821--3876071	123	2.0	123	94	0	439	37	24	23	14	1.92
3878591--3878626	7	5.1	7	89	0	54	44	0	0	55	0.99
3882989--3883166	90	2.0	90	90	0	284	44	6	12	35	1.68
3887061--3887099	18	2.2	18	100	0	78	20	17	30	30	1.96
3891541--3891574	9	3.7	9	88	4	50	50	14	8	26	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3891591--3891965	181	2.1	181	93	1	644	45	9	3	42	1.52
3893260--3893286	5	5.4	5	100	0	54	44	37	18	0	1.50
3893272--3893325	17	2.9	19	71	20	60	50	33	12	3	1.59
3893537--3893585	3	16.3	3	95	0	89	63	0	2	34	1.06
3901157--3901196	21	1.9	21	85	10	55	60	2	0	37	1.11
3901199--3901266	27	2.5	27	86	9	102	45	2	2	48	1.32
3902383--3902432	23	2.1	24	85	3	66	50	20	6	24	1.70
3902807--3903036	123	1.9	123	88	3	356	37	26	21	14	1.92
3911713--3911738	2	13.0	2	100	0	52	50	0	0	50	1.00
3914638--3914685	25	1.9	25	82	0	60	27	27	2	43	1.66
3925874--3926076	39	5.2	39	78	5	169	30	19	29	20	1.97
3925914--3926076	78	2.1	78	82	4	195	29	19	30	21	1.97
3926239--3926309	33	2.2	33	92	0	115	30	19	29	19	1.97
3927089--3927157	30	2.3	30	94	0	120	30	15	31	21	1.95
3926571--3927136	258	2.2	254	87	2	695	36	17	26	19	1.94
3926828--3927986	291	3.9	295	94	4	2064	36	19	25	18	1.95
3926969--3927986	303	3.4	303	95	3	1898	36	19	25	19	1.95
3927392--3927460	30	2.3	30	97	0	129	28	15	31	23	1.95
3927683--3927751	30	2.3	30	97	0	129	28	15	31	23	1.95
3926828--3928878	594	3.5	592	94	3	3606	35	19	25	19	1.95
3927968--3928035	30	2.3	30	86	0	91	32	16	29	22	1.95
3928259--3928327	30	2.3	30	97	0	129	28	15	31	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3928547--3928615	30	2.3	30	97	0	129	28	15	31	23	1.95
3927968--3928878	288	3.1	288	92	2	1491	35	18	25	19	1.95
3929522--3929874	195	1.8	195	84	6	491	35	16	24	22	1.95
3929528--3929926	195	2.0	194	80	6	441	36	18	23	21	1.95
3929200--3931490	489	4.7	489	96	0	4127	35	18	24	21	1.96
3930011--3930363	195	1.8	195	85	4	498	35	16	24	22	1.95
3931173--3931213	18	2.3	17	84	12	55	39	17	19	24	1.92
3930962--3931324	195	1.9	194	87	2	532	36	16	23	23	1.95
3930995--3931392	195	2.0	193	80	5	444	36	17	23	22	1.94
3931485--3931541	27	2.1	27	100	0	114	38	24	15	21	1.92
3932208--3932258	3	17.0	3	100	0	102	66	0	0	33	0.92
3933492--3933530	20	1.9	21	89	5	62	66	0	0	33	0.92
3938804--3939101	105	2.8	104	86	3	427	35	16	28	19	1.94
3949705--3949854	74	2.1	71	85	12	198	47	7	4	40	1.52
3950574--3950624	19	2.6	20	90	3	77	43	23	17	15	1.88
3950574--3950871	20	14.6	20	75	7	179	39	19	21	19	1.92
3950576--3950871	83	3.6	83	72	14	247	39	19	21	19	1.93
3950678--3950869	103	1.9	103	93	0	330	37	17	22	21	1.94
3950959--3951032	6	12.5	6	98	1	141	32	51	16	0	1.45
3951833--3951983	20	7.4	20	84	4	194	23	24	16	35	1.95
3951833--3952004	83	2.1	82	84	6	222	22	24	16	36	1.95
3951831--3952108	20	13.6	20	75	8	130	19	21	19	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3952058--3952108	19	2.6	20	90	3	77	15	17	23	43	1.88
3964522--3966037	106	14.4	106	93	1	2426	22	18	25	33	1.97
3972004--3972079	36	2.1	36	85	7	100	47	1	3	47	1.29
3973371--3973402	15	2.1	15	100	0	64	56	0	0	43	0.99
3973369--3973405	15	2.5	15	91	4	58	59	0	0	40	0.97
3976110--3976282	90	1.9	90	97	0	328	42	21	12	22	1.87
3980639--3980681	18	2.3	19	88	8	61	34	0	2	62	1.08
3983992--3984032	14	2.9	14	88	0	55	24	17	14	43	1.86
3986051--3986108	23	2.5	23	85	0	80	10	36	27	25	1.89
3986095--3986149	20	2.8	20	74	0	56	16	23	30	29	1.96

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49