genome.fa.s8061.2.7.7.80.10.50.1000.18.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  18  of  26  ( 3118 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)
3597840--3597914	35	2.1	36	85	7	100	37	18	10	33	1.86
3598265--3598499	40	5.5	44	73	12	170	25	31	20	23	1.98
3598268--3598531	43	6.1	45	69	18	152	26	30	18	23	1.98
3598251--3598553	129	2.3	129	90	1	482	26	30	19	23	1.98
3598720--3598761	3	14.0	3	90	9	68	33	0	0	66	0.92
3598719--3598761	22	2.0	21	95	4	77	32	0	0	67	0.91
3603024--3603073	18	3.0	18	77	11	54	34	0	14	52	1.42
3606176--3606212	18	2.1	18	100	0	74	32	5	13	48	1.65
3607227--3607285	21	2.9	19	75	12	55	23	15	22	38	1.92
3615752--3615783	17	1.9	17	93	6	57	34	15	0	50	1.45
3616020--3616073	28	1.9	28	85	7	74	14	0	37	48	1.45
3617229--3617399	60	2.9	59	78	4	173	33	5	25	35	1.80
3617292--3617379	29	3.0	29	68	15	72	39	7	18	34	1.80
3638481--3638541	21	3.2	21	61	29	55	40	21	6	31	1.78
3638433--3638542	35	3.1	34	89	6	157	43	20	5	30	1.74
3642992--3643099	34	3.1	34	90	4	162	44	19	4	31	1.71
3650962--3651057	18	5.4	18	76	14	85	33	8	13	44	1.74
3650962--3651057	35	2.7	35	79	6	115	33	8	13	44	1.74
3654475--3654515	11	3.7	11	87	9	57	39	2	2	56	1.26
3661098--3661133	2	17.5	2	88	5	54	52	0	44	2	1.15
3669605--3669647	9	4.6	9	85	8	50	74	9	2	13	1.16
3669615--3669650	9	3.9	9	92	3	54	72	8	0	19	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3669605--3669647	19	2.3	19	87	0	59	74	9	2	13	1.16
3676326--3676368	22	2.0	22	86	9	61	62	4	0	32	1.15
3678490--3678617	54	2.4	53	90	3	197	50	12	11	25	1.73
3678862--3678891	15	2.1	14	93	6	51	23	0	3	73	0.98
3681203--3681243	11	3.7	11	87	9	57	39	2	2	56	1.26
3683322--3683400	42	1.9	42	82	7	99	27	21	18	31	1.97
3686588--3686631	18	2.4	18	81	7	54	29	4	4	61	1.36
3687653--3687704	23	2.2	24	79	10	61	53	19	15	11	1.71
3687662--3687714	23	2.3	23	87	3	72	54	13	16	15	1.71
3690843--3690876	2	16.5	2	87	6	50	52	0	44	2	1.16
3693853--3693898	16	2.9	16	80	0	56	6	15	0	78	0.95
3694464--3694538	2	37.5	2	100	0	150	0	50	0	49	1.00
3694819--3694859	2	20.5	2	100	0	82	48	0	0	51	1.00
3695204--3695278	29	2.6	29	97	0	141	20	42	28	9	1.82
3695288--3695323	19	2.0	18	89	10	56	30	38	19	11	1.86
3695337--3695392	28	2.0	28	100	0	112	35	32	28	3	1.74
3695375--3695431	28	2.0	28	93	0	96	26	31	33	8	1.87
3695420--3695514	29	3.3	29	95	0	163	13	30	32	23	1.93
3695523--3695559	19	1.9	19	100	0	74	27	43	18	10	1.83
3695557--3695657	49	2.1	48	92	5	168	19	38	18	22	1.93
3695869--3695907	16	2.3	18	86	8	55	38	0	5	56	1.22
3696012--3696102	45	2.0	47	85	12	127	40	0	10	48	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3696132--3696184	12	4.3	12	81	11	63	30	0	16	52	1.44
3696165--3696240	33	2.3	32	82	12	93	40	0	11	47	1.40
3698475--3698507	17	1.9	17	100	0	66	48	9	6	36	1.60
3698474--3698524	14	3.4	14	82	12	57	45	7	7	39	1.62
3698502--3698545	21	2.1	21	86	0	61	45	4	9	40	1.56
3698512--3698545	11	3.2	11	83	8	52	47	5	8	38	1.59
3698492--3698556	14	5.2	13	76	17	50	46	7	7	38	1.61
3698665--3698691	7	3.9	7	100	0	54	14	14	14	55	1.70
3698763--3698810	14	3.6	14	81	16	66	47	16	0	35	1.47
3698782--3698892	47	2.3	49	90	4	172	48	10	0	40	1.38
3698879--3698966	21	4.3	21	66	18	60	44	15	0	39	1.47
3698830--3699019	60	3.2	60	93	3	339	45	14	0	39	1.45
3702084--3702137	28	1.9	28	96	0	99	57	12	0	29	1.36
3702080--3702144	28	2.3	28	84	10	96	55	10	0	33	1.35
3702114--3702162	21	2.3	21	85	3	71	53	16	0	30	1.43
3702771--3702873	30	3.4	30	87	0	161	10	17	47	24	1.79
3702791--3702884	20	4.7	20	70	15	77	11	19	46	22	1.81
3702851--3702883	10	3.3	10	100	0	66	9	18	51	21	1.73
3702897--3703008	29	3.9	29	97	0	206	8	27	43	19	1.81
3703224--3703335	29	3.9	29	97	0	206	19	43	27	8	1.81
3703349--3703441	10	9.3	10	70	17	68	22	47	19	10	1.80
3703359--3703461	30	3.4	30	87	0	161	24	47	17	10	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3704072--3704119	20	2.3	21	82	7	62	31	0	16	52	1.45
3704103--3704158	28	1.9	28	89	7	85	32	0	12	55	1.37
3707207--3707448	60	4.2	60	85	12	341	39	0	13	46	1.43
3707396--3707444	21	2.3	21	79	6	55	40	0	8	51	1.32
3707323--3707444	48	2.6	48	88	7	178	40	0	11	47	1.40
3707417--3707462	13	3.6	13	80	16	60	36	0	17	45	1.49
3707536--3707562	7	3.9	7	100	0	54	55	14	14	14	1.70
3707568--3707612	22	2.2	22	84	11	60	48	2	4	44	1.35
3707681--3707725	21	2.0	21	91	8	72	40	8	4	46	1.55
3709962--3710039	30	2.5	31	82	13	83	48	12	0	38	1.42
3709962--3710024	34	1.9	31	84	12	81	49	11	0	39	1.38
3710029--3710072	12	3.5	12	85	11	61	54	18	0	27	1.44
3710099--3710189	43	2.0	47	85	12	129	49	10	0	39	1.38
3710099--3710229	43	3.0	45	77	17	125	48	11	0	39	1.39
3710169--3710257	41	2.2	40	78	8	90	46	10	1	42	1.45
3710292--3710330	16	2.3	18	86	8	55	56	5	0	38	1.22
3710539--3710639	49	2.1	48	92	5	168	22	18	38	19	1.93
3710539--3710652	49	2.4	47	88	7	167	21	18	38	21	1.93
3710637--3710673	19	1.9	19	100	0	74	10	18	43	27	1.83
3710682--3710776	29	3.3	29	95	0	163	23	32	30	13	1.93
3710765--3710821	28	2.0	28	93	0	96	8	33	31	26	1.87
3710804--3710859	28	2.0	28	100	0	112	3	28	32	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3710873--3710908	19	2.0	18	89	10	56	11	19	38	30	1.86
3710918--3710992	29	2.6	29	93	0	132	9	26	42	21	1.83
3715346--3715517	93	1.9	92	86	2	247	44	5	5	44	1.50
3722129--3722171	22	2.0	22	86	9	61	62	4	0	32	1.15
3724289--3724416	54	2.4	53	90	3	197	50	12	11	25	1.73
3724662--3724691	15	2.1	14	93	6	51	23	0	3	73	0.98
3728037--3728088	20	2.6	20	96	0	95	38	26	13	21	1.90
3728078--3728176	21	4.8	20	72	6	72	36	23	19	21	1.95
3728143--3728336	20	9.6	20	81	5	221	35	25	19	19	1.95
3728143--3728336	60	3.2	60	83	0	253	35	25	19	19	1.95
3728719--3728789	33	2.2	33	92	0	115	11	22	18	47	1.80
3728910--3728978	14	4.6	14	80	16	84	40	23	27	8	1.84
3728990--3729087	19	5.7	19	70	22	81	10	24	22	42	1.84
3729012--3729101	14	5.7	14	74	23	81	8	25	23	42	1.83
3728995--3729109	33	3.5	33	95	0	212	9	24	20	45	1.81
3730806--3731278	185	2.5	186	99	0	930	21	12	19	46	1.83
3730806--3731278	93	5.1	93	98	0	930	21	12	19	46	1.83
3731322--3731450	19	7.3	19	75	17	125	45	28	17	8	1.77
3731358--3731450	33	2.8	32	91	4	150	46	27	18	7	1.76
3731322--3731450	52	2.5	52	74	14	140	45	28	17	8	1.77
3731446--3731580	19	7.6	19	75	16	128	11	19	23	45	1.82
3731468--3731524	14	3.7	14	77	20	60	10	21	22	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3731451--3731543	33	2.8	33	95	0	168	10	20	21	47	1.80
3732969--3733004	14	2.6	14	95	0	63	33	0	22	44	1.53
3733111--3733212	19	5.6	19	84	13	151	44	17	23	14	1.86
3733241--3733544	19	17.4	19	78	16	338	14	20	18	47	1.83
3733209--3733544	141	2.4	136	87	7	482	14	19	18	46	1.83
3733241--3733516	52	5.2	52	89	7	334	14	20	17	47	1.83
3735843--3735867	12	2.1	12	100	0	50	0	28	0	72	0.86
3736041--3736087	24	2.0	24	87	8	69	38	21	14	25	1.92
3736755--3737143	20	19.5	20	87	4	498	20	19	26	34	1.96
3753534--3753587	23	2.3	23	93	0	90	46	22	18	12	1.83

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