genome.fa.s9643.2.7.7.80.10.50.1000.18.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  18  of  41  ( 4862 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)
3671105--3671429	164	2.0	163	88	3	483	21	20	16	41	1.90
3677512--3677546	3	11.7	3	88	11	54	31	0	0	68	0.90
3677506--3677545	13	3.2	13	86	10	57	30	2	0	67	1.04
3683001--3683032	15	2.1	15	94	0	55	25	18	9	46	1.79
3691383--3691567	93	2.0	93	94	2	327	29	15	20	35	1.93
3692350--3692912	113	5.0	111	83	6	643	37	15	18	28	1.91
3692352--3692912	225	2.5	225	86	4	756	37	15	18	28	1.91
3693265--3693317	3	17.0	3	92	7	88	32	0	0	67	0.91
3699188--3699221	16	2.2	16	89	5	52	38	0	0	61	0.96
3699962--3699999	2	19.0	2	100	0	76	50	0	0	50	1.00
3703305--3703335	15	2.1	15	100	0	62	48	38	0	12	1.42
3714756--3714787	2	16.0	2	100	0	64	50	0	0	50	1.00
3719507--3719660	76	2.0	76	91	0	245	44	6	3	45	1.45
3720182--3720259	2	39.0	2	100	0	156	50	0	0	50	1.00
3736408--3736461	22	2.5	22	100	0	108	37	0	7	55	1.28
3740897--3740972	35	2.2	35	87	0	107	40	18	1	39	1.59
3740969--3741043	35	2.1	35	90	0	114	32	0	24	44	1.54
3743696--3743722	2	13.5	2	100	0	54	48	0	0	51	1.00
3744382--3744422	20	2.0	20	90	0	64	26	17	29	26	1.97
3744387--3744458	20	3.9	18	71	17	51	29	15	26	29	1.96
3744388--3744459	36	2.0	36	83	5	92	30	15	25	29	1.96
3744509--3744539	16	1.9	16	93	0	53	29	12	22	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3748479--3748527	19	2.6	19	100	0	98	26	16	30	26	1.97
3748568--3748648	24	3.4	24	98	0	153	33	18	23	24	1.97
3749415--3749484	18	3.9	18	94	0	122	18	22	32	25	1.97
3752753--3752820	19	3.6	19	100	0	136	26	16	30	26	1.96
3753687--3753748	18	3.4	18	91	4	99	19	22	27	30	1.98
3754607--3754660	21	2.6	21	96	0	99	33	18	18	29	1.95
3754697--3754753	20	3.1	19	78	12	66	29	17	26	26	1.97
3754701--3754772	36	2.0	36	83	5	92	29	18	23	29	1.97
3758652--3758700	18	2.8	18	81	3	64	69	6	0	24	1.11
3759222--3759246	11	2.3	11	100	0	50	16	0	28	56	1.41
3763842--3763882	21	2.0	21	90	0	64	24	9	26	39	1.86
3766909--3766948	21	1.9	21	89	0	62	42	7	0	50	1.30
3767345--3767551	21	10.0	21	86	7	205	20	19	25	33	1.97
3767351--3767551	63	3.2	62	81	9	241	20	19	25	33	1.96
3767391--3767544	82	1.9	83	93	2	265	20	18	25	35	1.95
3768252--3768314	21	2.9	21	88	4	72	34	23	20	20	1.96
3768266--3768314	21	2.3	21	96	0	89	32	28	20	18	1.96
3768377--3768425	21	2.3	21	89	0	71	30	26	20	22	1.98
3768252--3768471	111	2.0	113	90	3	356	32	19	22	25	1.97
3768385--3768426	21	2.0	21	95	0	75	28	26	21	23	1.99
3771895--3771927	15	2.2	15	94	0	57	45	0	0	54	0.99
3771860--3771985	58	2.2	58	98	0	243	45	6	2	46	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3771953--3771985	15	2.2	15	94	0	57	45	0	0	54	0.99
3772141--3772178	20	1.9	20	84	10	51	21	23	10	44	1.83
3774098--3774150	17	3.1	17	79	15	65	39	5	15	39	1.70
3774125--3774168	18	2.5	18	88	3	63	43	9	9	38	1.68
3775446--3775535	28	3.0	31	68	15	80	51	2	3	43	1.30
3775471--3775533	27	2.2	28	75	5	65	52	3	1	42	1.27
3775563--3775659	48	2.0	47	90	2	149	46	10	15	27	1.78
3776466--3776491	3	8.7	3	100	0	52	0	34	0	65	0.93
3793894--3793920	2	13.5	2	100	0	54	51	0	0	48	1.00
3799132--3799176	19	2.4	19	85	7	56	48	0	11	40	1.39
3820514--3820561	24	1.9	25	84	16	64	31	6	2	60	1.33
3822668--3822717	25	2.0	25	88	0	73	36	14	18	32	1.90
3824439--3824472	17	1.9	18	94	5	61	26	0	8	64	1.22
3824472--3824513	15	2.7	15	88	3	57	26	0	2	71	0.98
3824480--3824525	20	2.2	21	84	3	58	28	0	2	69	1.00
3824440--3824512	8	9.1	8	71	11	51	26	0	5	68	1.11
3824488--3824529	20	2.1	20	86	8	59	26	0	0	73	0.83
3827679--3827725	2	23.0	2	95	4	85	48	0	2	48	1.13
3827993--3828054	32	1.9	32	96	0	115	30	16	19	33	1.94
3828002--3828118	31	3.7	31	79	3	92	29	17	20	33	1.95
3828945--3828985	21	2.0	21	90	0	64	26	17	21	34	1.95
3830648--3830699	23	2.3	23	93	0	86	19	26	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3835367--3835411	12	3.9	12	82	5	58	64	2	0	33	1.06
3839622--3839660	2	20.0	2	94	5	71	0	51	0	48	1.00
3841095--3841141	22	2.1	22	88	7	69	53	0	2	44	1.12
3840047--3841345	644	2.0	651	89	3	2004	35	14	11	37	1.83
3846120--3846183	4	16.0	4	93	0	92	46	3	0	50	1.17
3846120--3846183	10	6.4	10	92	0	92	46	3	0	50	1.17
3846765--3846815	25	2.0	25	92	0	84	33	13	11	41	1.81
3854521--3854563	2	21.5	2	100	0	86	51	0	48	0	1.00
3862672--3862696	2	12.5	2	100	0	50	48	0	0	52	1.00
3864645--3864686	21	2.0	22	90	4	68	50	4	0	45	1.23
3865581--3865830	136	1.8	136	87	3	369	32	7	9	50	1.63
3877171--3877242	26	2.8	26	93	2	119	41	8	6	43	1.62
3880156--3880219	2	32.0	2	100	0	128	50	0	0	50	1.00
3884033--3884060	2	14.0	2	100	0	56	50	0	0	50	1.00
3884566--3884594	12	2.5	12	94	5	51	31	0	41	27	1.56
3888039--3888076	20	1.9	20	100	0	76	31	21	23	23	1.98
3890788--3890842	12	4.7	12	93	2	94	32	0	40	27	1.57
3892242--3892389	72	2.0	72	89	2	224	50	16	2	31	1.56
3896685--3896765	27	3.2	26	74	11	71	51	1	0	46	1.08
3900123--3900619	127	3.8	125	85	7	598	22	23	20	33	1.97
3900451--3900500	21	2.4	21	96	0	91	22	30	22	26	1.99
3900338--3900619	148	1.9	148	91	1	467	22	23	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3900878--3900909	14	2.3	14	94	0	55	28	0	12	59	1.34
3901017--3901089	34	2.1	34	84	0	92	38	4	6	50	1.48
3901610--3901671	21	2.9	22	92	4	101	22	20	37	19	1.95
3901648--3901740	42	2.2	41	80	1	96	24	17	35	22	1.95
3903456--3903530	15	5.1	15	77	4	73	58	0	0	41	0.98
3904962--3905362	6	66.3	6	87	5	335	55	0	41	2	1.16
3905472--3905709	6	38.8	6	88	5	208	50	0	47	0	1.12
3905619--3905695	3	25.7	3	91	0	127	35	0	62	2	1.09
3907412--3907458	3	15.7	3	100	0	94	65	0	0	34	0.93
3907681--3907741	22	2.8	22	82	0	77	22	24	18	34	1.96
3912029--3912066	2	19.0	2	100	0	76	50	0	0	50	1.00
3915074--3915142	34	2.0	35	97	2	131	34	5	2	56	1.38
3917089--3917124	9	4.0	9	85	0	54	27	0	2	69	1.02
3921212--3921242	14	2.2	14	94	0	53	32	6	29	32	1.83
3921301--3921327	4	6.8	4	100	0	54	25	0	0	74	0.83
3922559--3922602	23	1.9	23	90	0	70	20	15	11	52	1.74
3922561--3922612	23	2.3	23	83	6	61	17	19	11	51	1.75
3923158--3923199	14	3.0	14	80	20	52	57	0	2	40	1.12
3931711--3931767	23	2.4	24	85	8	73	26	15	21	36	1.93
3934459--3934503	21	2.1	21	87	0	63	31	28	24	15	1.96
3935083--3935117	18	1.9	18	88	11	54	54	5	17	22	1.64
3935174--3935217	22	2.0	22	86	4	63	45	0	22	31	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3935931--3936234	149	2.0	149	95	0	554	28	17	20	34	1.95
3936213--3936257	23	2.0	23	86	0	63	20	24	28	26	1.99
3937123--3937156	17	2.0	17	94	0	59	17	44	2	35	1.64
3944180--3944293	58	2.0	58	82	6	142	33	17	5	43	1.71
3944461--3944652	60	3.2	59	81	11	196	37	6	23	32	1.80
3944989--3945042	24	2.3	23	78	9	56	53	5	3	37	1.42
3956988--3957020	11	2.8	12	81	9	50	42	9	0	48	1.35
3956985--3957038	23	2.3	23	81	6	65	42	11	0	46	1.39
3959629--3959666	16	2.4	16	100	0	76	31	0	0	68	0.90
3963509--3963664	43	3.4	43	67	14	125	33	25	19	21	1.97

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