genome.fa.s7748.2.7.7.80.10.50.1000.17.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

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   

This is table  17  of  24  ( 2778 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)
3241698--3241746	22	2.2	22	82	7	64	32	30	28	8	1.86
3242618--3242728	31	3.6	31	97	0	204	18	19	22	38	1.93
3242618--3242742	62	2.0	62	90	3	198	20	19	22	37	1.94
3244594--3244714	42	2.9	42	79	7	129	24	18	34	22	1.96
3245183--3245226	20	2.2	20	95	0	79	50	22	11	15	1.76
3245193--3245262	20	3.5	20	76	3	59	41	25	14	18	1.88
3245312--3245385	33	2.2	34	82	2	87	16	17	17	48	1.81
3245379--3245442	20	3.2	20	78	8	76	20	21	21	35	1.96
3247359--3247414	20	2.8	20	91	0	85	53	21	16	8	1.69
3248743--3248781	20	2.0	20	100	0	78	25	15	15	43	1.86
3248710--3248804	20	4.8	20	76	5	59	28	20	21	30	1.98
3248819--3248864	19	2.4	19	85	3	56	21	17	30	30	1.96
3248830--3248866	19	1.9	19	94	0	65	21	16	29	32	1.95
3251601--3251631	2	15.5	2	100	0	62	51	0	0	48	1.00
3251631--3251659	2	14.5	2	100	0	58	51	0	48	0	1.00
3258584--3258613	3	10.0	3	100	0	60	0	33	0	66	0.92
3258848--3258876	12	2.3	13	94	5	51	68	0	0	31	0.89
3259035--3259066	13	2.4	14	85	15	50	78	3	6	12	1.06
3259017--3259051	18	1.9	18	100	0	70	80	0	8	11	0.92
3260486--3260532	24	2.0	24	82	0	58	68	0	2	29	1.02
3260603--3260899	38	7.9	36	77	14	246	44	8	4	43	1.53
3260668--3260925	38	6.8	38	80	8	231	45	8	3	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3261665--3262279	106	5.8	106	94	0	1018	22	17	25	34	1.96
3264198--3264257	5	11.6	5	87	7	66	71	0	5	23	1.05
3264284--3264347	27	2.3	27	79	12	67	46	7	3	42	1.48
3264374--3264548	39	4.6	38	80	13	173	46	6	3	43	1.47
3264395--3264534	38	3.8	36	81	10	122	45	7	3	43	1.48
3265534--3265567	18	1.9	18	88	5	52	26	29	26	17	1.98
3265749--3265798	26	1.9	26	91	0	82	46	14	8	32	1.73
3265755--3265815	26	2.3	26	94	0	104	47	13	9	29	1.74
3266783--3266847	33	2.0	33	87	0	94	36	6	12	44	1.67
3267470--3267602	66	2.0	66	100	0	266	16	12	36	34	1.86
3269684--3269728	21	2.1	22	83	4	56	35	4	0	60	1.17
3274484--3274526	3	14.7	3	81	13	54	65	0	2	32	1.06
3274905--3274971	35	1.9	35	96	0	125	23	22	11	41	1.87
3275035--3275138	40	2.6	40	89	4	149	23	19	5	51	1.67
3274756--3275153	159	2.5	160	86	4	550	25	18	13	42	1.86
3275077--3276607	113	13.5	113	91	1	2116	28	19	13	37	1.90
3276552--3276595	22	1.9	24	86	9	65	15	22	6	54	1.65
3277043--3277098	23	2.5	22	80	5	67	35	12	14	37	1.84
3277463--3277596	54	2.6	53	83	4	157	27	24	14	32	1.95
3277568--3277647	40	2.0	40	97	0	151	30	21	16	32	1.95
3279577--3279805	115	2.0	114	90	0	359	30	20	16	32	1.95
3279621--3279847	115	2.0	114	82	6	280	32	20	16	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3283944--3283985	7	6.0	7	78	10	50	54	14	16	14	1.71
3286280--3286333	22	2.4	21	81	9	54	55	0	1	42	1.10
3287278--3287344	3	22.7	3	85	8	84	62	0	1	35	1.04
3292423--3292592	32	5.4	32	92	1	263	34	22	15	27	1.94
3293107--3293209	30	3.5	30	80	11	124	50	13	2	33	1.57
3293107--3293351	29	8.5	29	79	6	176	49	13	3	33	1.58
3293107--3293351	87	2.8	87	74	4	201	49	13	3	33	1.58
3304794--3305190	200	2.0	198	95	3	719	28	20	23	27	1.99
3306224--3306336	57	2.0	56	96	3	210	34	15	14	35	1.88
3309253--3309307	26	2.1	27	83	10	69	49	21	10	18	1.78
3309312--3309336	5	5.0	5	100	0	50	40	40	20	0	1.52
3313601--3313633	9	3.8	9	84	8	50	60	3	0	36	1.12
3313601--3313634	17	2.0	17	100	0	68	58	5	0	35	1.22
3314331--3314420	45	2.0	45	100	0	180	28	15	15	40	1.88
3314572--3314600	3	10.0	3	92	7	51	0	31	0	68	0.89
3314376--3314720	125	2.8	125	94	2	610	27	19	7	44	1.78
3314697--3314745	3	17.0	3	85	8	66	4	28	0	67	1.09
3314697--3314745	14	3.4	14	85	2	71	4	28	0	67	1.09
3314172--3314862	270	2.5	278	83	8	796	26	20	7	44	1.79
3314579--3314862	145	2.0	145	95	1	516	23	22	6	46	1.75
3329015--3329049	4	8.8	4	100	0	70	25	0	0	74	0.82
3335455--3335489	4	8.8	4	100	0	70	25	0	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3340735--3340772	16	2.4	16	95	0	67	23	18	34	23	1.96
3340735--3340782	16	3.2	15	88	8	64	25	16	33	25	1.96
3341819--3341845	4	6.8	4	100	0	54	25	0	0	74	0.83
3347227--3347264	18	2.1	19	90	5	60	63	5	7	23	1.42
3347863--3347915	3	17.7	3	88	7	81	37	0	0	62	0.96
3347862--3347920	9	6.7	9	86	9	68	40	0	0	59	0.97
3349377--3349447	27	2.7	27	77	14	76	33	1	2	61	1.19
3352713--3352741	13	2.3	13	94	5	51	24	13	6	55	1.63
3355433--3355476	9	4.7	9	81	10	52	79	0	20	0	0.73
3358886--3359137	75	3.3	75	82	3	294	29	19	22	28	1.98
3359978--3360089	54	2.1	54	84	0	143	33	16	21	28	1.95
3360463--3360539	22	3.5	22	80	3	93	33	15	14	36	1.88
3376519--3376591	34	2.1	35	97	2	139	41	10	5	42	1.63
3376535--3376589	17	3.2	17	66	19	51	41	14	5	38	1.69
3380597--3380700	51	2.0	52	84	1	138	25	10	21	43	1.84
3381222--3381416	93	2.1	93	92	1	329	29	10	20	39	1.86
3381998--3382036	19	2.1	19	85	0	51	23	7	20	48	1.75
3385691--3385743	21	2.5	21	78	0	61	20	24	18	35	1.95
3385733--3385826	20	4.7	20	86	2	143	38	20	21	20	1.94
3385733--3385826	41	2.3	40	90	1	143	38	20	21	20	1.94
3386026--3386087	22	2.8	22	78	7	72	27	37	14	20	1.92
3386424--3386530	20	5.5	20	83	5	112	14	15	20	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3386422--3386530	38	2.8	38	78	6	112	14	16	20	48	1.81
3388469--3388535	20	3.3	20	89	4	100	38	19	17	23	1.93
3388585--3388701	20	6.2	20	78	16	106	17	18	23	41	1.90
3389187--3389228	21	2.2	20	87	12	61	21	35	16	26	1.94
3389209--3389261	21	2.5	23	76	17	60	22	35	15	26	1.93
3390846--3390974	20	6.4	20	93	1	215	17	23	25	33	1.96
3393407--3393460	24	2.2	24	93	0	90	40	20	18	20	1.91
3394303--3394348	20	2.3	20	88	0	65	21	21	28	28	1.99
3394343--3394468	20	6.2	20	78	1	135	23	19	18	39	1.92
3396606--3396709	51	2.0	52	84	1	138	25	10	21	43	1.84
3397262--3397413	49	3.2	47	65	19	118	30	9	20	40	1.84
3397225--3397419	93	2.1	93	94	1	338	29	9	20	40	1.85
3398001--3398039	19	2.1	19	90	0	60	25	7	17	48	1.74
3402203--3402340	22	6.9	21	73	15	123	18	21	31	29	1.96
3402226--3402338	18	5.8	18	71	15	82	17	18	32	30	1.94
3402204--3402340	40	3.4	40	89	0	211	18	20	31	29	1.96
3407396--3407463	18	3.4	21	73	22	74	16	25	27	30	1.96
3407416--3407487	18	3.9	18	76	7	72	16	20	33	29	1.95
3407393--3407484	38	2.3	40	88	3	143	18	21	29	30	1.97
3414626--3414675	14	3.6	14	81	5	57	38	6	6	50	1.52
3417341--3417382	20	2.2	19	86	4	57	28	0	0	71	0.86
3422836--3422880	23	2.0	23	86	8	65	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3423227--3423257	12	2.7	12	95	5	55	54	0	0	45	0.99
3427847--3427877	11	2.8	11	100	0	62	19	48	16	16	1.81
3428848--3428887	21	1.9	21	85	10	55	15	10	37	37	1.80
3429071--3429173	23	4.7	23	70	20	94	23	19	34	22	1.96
3429052--3429173	64	1.9	64	94	0	217	22	19	34	22	1.97
3429494--3429542	24	2.0	24	88	7	73	32	26	22	18	1.97
3429503--3429569	24	2.9	23	86	10	84	34	26	23	14	1.94
3429531--3429632	23	4.4	23	85	2	98	31	25	25	17	1.97
3429544--3429641	46	2.2	46	86	1	135	32	22	25	19	1.97
3429544--3429637	23	4.1	23	85	0	116	30	23	26	19	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