genome.fa.s7957.2.7.7.80.10.50.1000.20.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  20  of  43  ( 5063 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)
3996217--3996243	7	3.9	7	100	0	54	29	29	14	25	1.95
3997486--3997521	18	2.0	18	89	10	56	47	16	16	19	1.83
4007142--4007204	21	3.0	21	80	0	81	33	15	20	30	1.94
4010668--4010731	23	2.8	22	85	4	83	26	26	26	20	1.99
4017504--4017590	23	3.8	23	89	3	131	27	26	25	20	1.99
4019780--4019840	25	2.5	25	89	2	88	34	1	6	57	1.34
4024989--4025021	16	2.1	16	94	0	57	45	0	0	54	0.99
4029257--4029638	181	2.1	179	79	5	405	39	8	9	42	1.69
4032897--4033955	200	5.3	197	81	3	1063	26	20	20	32	1.97
4032931--4033955	399	2.6	399	82	3	1175	26	20	20	33	1.97
4035729--4035789	25	2.4	26	94	2	106	36	19	9	34	1.85
4036602--4036673	32	2.2	34	78	9	87	47	11	20	20	1.81
4044604--4045114	55	9.3	55	86	2	708	27	19	18	34	1.95
4048581--4048626	20	2.3	19	85	14	58	26	15	8	50	1.73
4058916--4058961	20	2.3	19	85	14	58	26	15	8	50	1.73
4062882--4063228	55	6.3	55	90	1	509	25	19	20	34	1.96
4062906--4063223	164	1.9	164	91	0	519	26	18	19	35	1.95
4067391--4067567	44	4.0	44	87	0	255	24	22	12	40	1.88
4073371--4073547	44	4.0	44	92	0	291	25	21	10	41	1.85
4074087--4074134	21	2.5	20	86	10	64	35	20	14	29	1.93
4075347--4075404	26	2.2	28	78	12	68	70	5	3	20	1.21
4076557--4076732	87	2.0	87	96	0	325	50	5	3	40	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4076668--4076745	28	2.8	27	75	19	72	52	3	3	39	1.38
4077393--4078354	200	4.8	200	79	5	900	26	19	20	33	1.97
4077393--4078354	394	2.4	397	79	6	1024	26	19	20	33	1.97
4081618--4081671	28	1.9	28	85	7	74	46	3	1	48	1.30
4082208--4082261	20	2.7	19	75	11	54	66	7	0	25	1.17
4082219--4082264	19	2.4	19	82	10	58	63	10	0	26	1.27
4083171--4083196	4	6.5	4	100	0	52	23	0	0	76	0.78
4083665--4083714	23	2.2	23	85	0	64	40	10	16	34	1.81
4083674--4083721	23	2.1	23	88	0	69	41	8	16	33	1.78
4083637--4083799	87	1.9	87	90	2	265	41	11	14	33	1.81
4085774--4085821	19	2.5	19	93	0	78	54	10	4	31	1.53
4091724--4091781	20	2.8	21	78	14	57	31	13	6	48	1.69
4091711--4093648	198	9.8	198	87	3	2504	30	15	14	39	1.87
4094892--4094944	24	2.2	24	89	0	79	47	13	1	37	1.54
4095795--4095845	3	17.7	3	82	15	63	37	0	1	60	1.08
4099487--4099562	21	3.6	21	87	3	100	44	18	18	18	1.87
4099502--4099574	21	3.5	21	86	3	103	45	17	17	19	1.86
4099819--4099851	7	4.9	7	88	3	50	15	18	15	51	1.77
4105119--4105813	51	13.3	51	81	6	784	33	18	25	23	1.96
4105119--4105813	105	6.6	105	84	4	832	33	18	25	23	1.96
4105142--4105813	317	2.1	315	86	3	947	33	18	25	23	1.97
4105807--4106149	55	6.3	55	82	6	410	33	15	23	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4105664--4106149	108	4.5	109	82	9	482	33	15	23	26	1.95
4105807--4106149	110	3.1	110	86	7	457	33	15	23	27	1.94
4106432--4106476	3	15.7	3	80	17	51	37	0	2	60	1.09
4106432--4106476	19	2.2	21	88	7	67	37	0	2	60	1.09
4111047--4111524	201	2.4	201	92	0	787	34	14	13	37	1.86
4111353--4111691	166	2.0	167	98	0	662	31	15	15	37	1.89
4111519--4112580	201	5.3	200	91	2	1725	32	15	15	37	1.88
4112940--4113007	19	3.6	19	91	0	109	54	7	2	35	1.43
4114561--4114599	18	2.2	18	95	0	69	5	35	0	58	1.20
4115033--4115073	9	4.6	9	84	0	55	7	56	4	31	1.48
4115033--4115073	18	2.3	18	95	0	73	7	56	4	31	1.48
4115306--4115361	24	2.4	23	80	8	69	50	7	0	42	1.30
4117798--4117843	19	2.4	19	85	3	65	28	30	10	30	1.91
4118217--4118263	20	2.3	20	75	7	51	17	21	12	48	1.79
4117992--4118658	182	3.7	182	86	3	907	27	16	13	43	1.85
4118976--4119380	42	9.8	42	82	6	461	27	20	18	33	1.96
4118974--4119406	83	5.2	83	83	6	463	27	19	18	33	1.95
4118976--4119380	125	3.3	122	87	3	535	27	20	18	33	1.96
4124135--4124193	21	2.8	21	81	0	64	18	5	18	57	1.58
4124346--4124594	43	5.8	43	88	3	342	30	23	20	25	1.99
4129404--4129455	20	2.6	20	87	6	70	36	17	26	19	1.94
4129882--4130095	54	3.9	55	88	4	281	33	10	21	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4130302--4130561	68	3.8	68	87	2	360	31	13	23	31	1.93
4130512--4130896	81	4.8	81	86	5	460	37	10	22	29	1.88
4130519--4130896	162	2.3	161	86	6	516	37	10	22	29	1.88
4130968--4130998	2	15.5	2	100	0	62	51	0	0	48	1.00
4137435--4137467	2	17.0	2	93	6	59	51	0	0	48	1.00
4137589--4137640	2	26.0	2	100	0	104	50	0	50	0	1.00
4148252--4148392	51	2.8	51	100	0	282	43	6	24	25	1.77
4148652--4148705	24	2.2	24	83	0	72	44	7	40	7	1.60
4149210--4149707	247	2.0	245	96	1	917	27	13	25	33	1.93
4153200--4153522	173	1.8	179	90	7	536	38	13	25	23	1.91
4158626--4158688	29	2.3	27	81	8	72	42	25	6	25	1.78
4163352--4163532	90	2.0	91	98	1	355	9	35	22	32	1.87
4167307--4167428	38	2.9	44	82	14	175	36	16	19	27	1.93
4181190--4181247	6	9.3	6	80	14	64	18	13	15	51	1.76
4181200--4181247	12	3.8	13	89	10	73	20	16	16	45	1.85
4185387--4185490	46	2.3	46	96	0	190	29	21	21	27	1.98
4185659--4185751	42	2.2	42	92	0	150	26	20	21	31	1.98
4185670--4186004	42	7.9	42	66	14	157	30	18	22	28	1.97
4185667--4185936	135	2.0	135	94	0	468	31	18	22	27	1.97
4185931--4185995	22	3.0	23	67	17	66	26	15	26	32	1.95
4185804--4186088	122	2.3	122	95	0	498	29	18	22	28	1.98
4186512--4186826	53	5.9	53	85	1	400	29	20	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4189393--4189465	28	2.6	28	95	0	128	54	2	0	42	1.14
4189439--4189489	22	2.3	21	77	9	57	52	0	0	47	1.00
4189579--4189642	19	3.4	19	72	18	53	51	0	0	48	1.00
4189808--4189869	29	2.1	29	85	11	83	50	0	3	46	1.17
4189807--4189897	35	2.6	35	76	8	96	48	0	2	49	1.13
4191111--4191175	31	2.1	32	88	2	96	52	6	3	38	1.42
4192404--4192516	57	2.0	58	82	5	140	32	16	11	38	1.85
4195172--4195230	14	3.8	14	72	23	55	49	22	8	20	1.75
4195374--4195402	15	1.9	15	100	0	58	41	0	3	55	1.17
4197121--4197209	33	2.7	33	96	0	160	48	19	1	31	1.56
4199044--4199175	36	3.7	36	87	4	196	33	15	11	39	1.84
4199714--4199870	36	4.4	36	93	2	264	33	16	12	37	1.86
4200084--4200160	34	2.3	34	95	0	136	50	9	14	25	1.72
4205253--4205315	29	2.2	29	94	5	110	34	22	11	31	1.89
4209101--4209162	22	2.7	23	82	9	74	17	24	35	22	1.95
4209078--4209163	23	3.9	23	74	15	74	16	24	36	23	1.94
4216385--4216429	23	2.0	22	91	4	72	11	11	8	68	1.39
4225106--4225157	23	2.2	23	93	3	86	38	11	17	32	1.85
4225192--4225230	17	2.3	17	86	8	53	25	0	2	71	0.98
4226350--4226409	30	2.1	29	84	6	77	21	6	0	71	1.08
4230214--4231487	106	12.0	106	94	0	2050	33	25	18	22	1.97
4232091--4232129	17	2.3	17	86	8	53	25	0	2	71	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4233241--4233300	30	2.1	29	84	6	77	21	6	0	71	1.08
4236596--4236669	31	2.4	31	82	15	98	35	8	12	44	1.71
4242394--4242436	17	2.6	16	78	10	50	23	4	9	62	1.44
4246207--4246259	23	2.3	23	87	9	72	75	3	20	0	0.96
4248214--4248428	57	3.9	55	80	10	199	31	8	20	40	1.82
4248278--4248481	57	3.6	56	80	10	161	31	9	19	39	1.84
4249020--4249210	54	3.5	51	76	11	132	34	8	17	38	1.81
4249088--4249292	57	3.7	55	78	8	193	33	10	18	38	1.84
4249552--4249636	41	2.0	41	84	2	107	28	22	18	30	1.97
4249529--4249636	42	2.6	42	76	4	112	25	23	20	30	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   32   
          33   34   35   36   37   38   39   40   41   42   43