genome.fa.s7744.2.7.7.80.10.50.1000.13.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: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4276731

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  13  of  16  ( 1862 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)
2969004--2969052	22	2.2	22	77	0	53	14	22	26	36	1.92
2971070--2971184	59	1.9	59	87	0	167	26	14	23	34	1.94
2974349--2974400	22	2.4	22	83	6	61	21	19	19	40	1.92
2986380--2986412	13	2.5	13	100	0	66	39	9	30	21	1.84
2987354--2987408	22	2.5	22	100	0	110	34	12	25	27	1.92
2987839--2988021	46	4.0	46	89	2	280	43	11	22	22	1.85
2987939--2988095	72	2.2	72	92	0	269	44	14	21	20	1.86
2987893--2988112	118	1.9	118	93	0	377	44	12	22	21	1.85
2987839--2988069	92	2.5	89	83	9	218	43	12	22	22	1.86
2988011--2988127	46	2.5	46	92	0	198	44	15	21	18	1.86
2993185--2993234	5	10.2	5	83	12	68	80	0	18	2	0.82
2993180--2993234	14	3.8	14	83	9	65	80	0	18	1	0.81
2993185--2993234	9	5.1	10	83	11	68	80	0	18	2	0.82
2994072--2994114	23	1.9	21	81	13	50	30	18	16	34	1.93
2999613--2999725	45	2.4	47	84	5	133	44	10	23	22	1.83
3007011--3007092	20	4.0	21	77	14	84	28	19	10	41	1.85
3010533--3010562	10	3.0	10	100	0	60	30	20	0	50	1.49
3017299--3017457	56	2.8	56	78	1	158	24	17	22	35	1.95
3020336--3020376	17	2.5	17	88	4	57	85	7	7	0	0.75
3034600--3034712	56	2.0	56	87	0	163	24	20	21	33	1.97
3034614--3034747	56	2.4	56	79	0	151	23	17	23	35	1.96
3043334--3043458	47	2.8	45	85	7	173	31	20	8	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3049405--3049826	211	2.0	210	98	1	819	35	13	10	40	1.79
3050162--3050205	3	14.7	3	100	0	88	65	0	0	34	0.93
3050827--3050876	21	2.3	21	79	3	55	24	4	6	66	1.32
3050975--3051009	2	17.5	2	100	0	70	51	0	0	48	1.00
3055315--3055358	15	2.8	16	82	10	54	75	6	13	4	1.17
3083592--3083657	24	2.8	24	76	0	69	30	19	16	33	1.94
3096362--3096400	18	2.1	19	85	4	53	41	0	30	28	1.57
3096450--3096482	14	2.3	15	89	5	50	69	0	15	15	1.19
3096681--3096717	19	1.9	18	89	10	56	0	16	5	78	0.93
3096871--3096904	17	2.0	17	88	11	52	70	0	11	17	1.16
3139135--3139172	12	2.9	13	88	7	51	18	13	0	68	1.21
3149310--3149388	28	2.8	29	86	1	106	10	13	12	63	1.53
3153590--3153654	25	2.4	27	85	10	80	10	15	15	58	1.63
3153609--3153665	25	2.2	26	90	3	89	8	15	14	61	1.56
3156381--3156445	32	2.0	33	82	11	80	56	0	18	24	1.41
3157368--3157801	239	1.8	239	96	1	807	38	15	16	28	1.90
3159415--3159470	22	2.5	22	94	0	94	44	21	23	10	1.83
3160257--3160291	18	1.9	18	88	11	54	80	0	17	2	0.84
3165930--3165969	22	1.9	20	90	10	62	22	15	15	47	1.82
3169777--3169916	17	8.1	17	79	9	122	37	16	7	39	1.76
3173998--3174137	17	8.1	17	82	4	147	37	16	7	38	1.76
3179306--3179470	78	2.1	78	98	0	321	32	14	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3183015--3183089	35	2.1	35	87	0	105	32	28	28	12	1.92
3183167--3183248	24	3.5	24	84	3	112	35	20	17	26	1.95
3185546--3185579	15	2.1	16	89	10	52	29	26	29	14	1.95
3198100--3198147	24	2.0	24	84	8	62	77	4	16	2	1.03
3214895--3214922	14	2.0	14	100	0	56	28	35	0	35	1.58
3214897--3214935	14	2.8	14	88	0	51	33	35	0	30	1.58
3221523--3221582	27	2.3	26	86	11	79	6	13	3	76	1.11
3221547--3221601	19	2.7	20	83	13	67	5	12	3	78	1.06
3223644--3223711	24	2.8	24	79	0	73	29	22	17	30	1.97
3224930--3224958	12	2.3	13	94	5	51	0	17	0	82	0.66
3224943--3224993	26	1.9	27	92	4	86	9	13	15	60	1.58
3225021--3225046	12	2.2	12	100	0	52	15	34	7	42	1.75
3229371--3229404	16	2.2	15	89	5	50	0	0	11	88	0.52
3229364--3229404	11	3.5	11	84	12	55	0	0	14	85	0.60
3229185--3229618	213	2.0	217	95	3	799	29	10	18	41	1.83
3229586--3229623	16	2.4	16	95	4	69	0	0	13	86	0.56
3229578--3229622	24	2.0	22	91	8	72	0	0	13	86	0.57
3230224--3230257	16	2.1	17	89	10	54	70	5	0	23	1.09
3231538--3231638	49	2.1	49	100	0	202	43	13	7	34	1.74
3233944--3233968	5	5.0	5	100	0	50	0	20	0	80	0.72
3233965--3234022	25	2.4	24	86	8	82	8	13	13	63	1.51
3238433--3238464	15	2.1	16	94	5	57	12	28	0	59	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3238672--3238715	6	7.2	6	82	12	54	79	2	18	0	0.83
3242509--3242575	33	2.1	33	83	13	86	14	26	0	58	1.37
3242509--3242555	15	2.8	17	75	18	53	12	31	0	55	1.38
3246157--3246191	10	3.5	10	88	11	54	20	20	0	60	1.37
3248864--3248928	14	4.7	14	94	1	114	23	40	0	36	1.55
3255449--3255531	14	6.0	13	72	17	51	8	13	2	75	1.12
3255453--3255520	14	5.3	13	77	13	61	7	11	2	77	1.07
3261941--3262109	20	8.3	20	70	5	79	38	18	16	26	1.92
3261912--3262082	82	2.1	82	87	0	243	35	19	15	28	1.93
3262002--3262118	61	1.9	61	84	6	157	40	17	16	26	1.90
3262619--3262680	20	3.0	20	90	7	88	48	19	19	12	1.81
3264457--3264508	21	2.5	21	83	0	59	23	19	25	32	1.97
3264837--3264907	21	3.4	20	73	7	61	22	32	19	25	1.98
3264816--3264907	42	2.2	42	82	3	114	22	33	18	25	1.97
3265161--3265196	18	2.0	18	94	0	63	16	2	25	55	1.55
3268444--3268526	20	4.2	20	79	10	91	36	12	21	30	1.90
3268578--3268733	20	7.8	20	75	2	134	21	19	16	42	1.88
3268584--3268733	40	3.8	41	79	5	155	21	18	16	43	1.88
3268583--3268733	60	2.5	60	80	2	160	21	19	16	43	1.88
3269395--3269447	24	2.2	24	86	0	70	24	35	15	24	1.94
3274142--3274203	27	2.3	27	100	0	124	29	30	9	30	1.89
3275877--3275922	24	2.0	23	87	8	67	19	13	13	54	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3275872--3275926	24	2.2	25	75	21	62	16	14	10	58	1.64
3279972--3280182	38	5.5	38	89	2	271	41	15	9	34	1.78
3280290--3280490	58	3.5	59	78	10	175	42	13	8	35	1.74
3280637--3280776	45	3.1	44	81	6	163	42	13	7	35	1.73
3280641--3280777	47	3.0	47	83	2	161	42	13	7	36	1.73
3281054--3281135	41	2.0	41	92	4	139	42	17	4	35	1.70
3281716--3281960	122	2.0	122	97	0	463	40	15	17	25	1.89
3284240--3284273	16	2.1	17	88	5	52	35	23	5	35	1.79
3286927--3286960	12	2.7	13	86	9	52	41	5	8	44	1.60
3291294--3291358	3	22.0	3	84	3	87	36	1	0	61	1.05
3296773--3296804	15	2.1	15	94	0	55	25	18	9	46	1.79
3304132--3304194	10	6.9	9	77	15	67	82	0	17	0	0.67
3305342--3305818	83	5.6	83	87	5	688	26	12	23	37	1.90
3305342--3305870	166	3.1	170	89	5	780	28	12	22	36	1.91
3306310--3306410	52	1.9	52	100	0	202	35	13	16	33	1.89
3307330--3307393	20	3.2	20	66	16	51	46	10	17	25	1.80
3306748--3307766	113	8.9	113	85	7	1137	38	14	19	28	1.91
3307443--3307506	20	3.2	20	66	16	51	46	10	17	25	1.80
3308051--3308116	3	22.0	3	87	0	96	37	1	0	60	1.06
3308058--3308125	15	4.3	16	81	12	79	41	1	0	57	1.08
3313939--3313985	23	2.0	23	91	0	76	29	12	19	38	1.89
3313939--3313995	23	2.5	23	85	2	71	29	12	19	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3315276--3315346	38	1.9	36	86	11	99	35	40	9	14	1.79
3316422--3316656	101	2.3	104	84	6	327	36	17	8	38	1.79
3317497--3317580	19	4.5	19	73	14	68	34	4	3	57	1.37
3318295--3318362	20	3.4	20	77	0	73	61	14	8	14	1.55
3318562--3318587	4	6.5	4	100	0	52	76	0	0	23	0.78
3319068--3319093	7	3.7	7	100	0	52	46	0	0	53	1.00
3320650--3320819	69	2.5	69	94	0	286	50	15	7	26	1.70
3320805--3320861	23	2.6	21	74	15	62	52	22	3	21	1.62
3320876--3320970	24	3.8	25	77	9	86	52	25	4	17	1.63
3320788--3320991	51	3.8	52	79	12	243	52	23	3	20	1.62

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16