genome.fa.s9001.2.7.7.80.10.50.1000.15.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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  15  of  24  ( 2777 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)
2980252--2980288	14	2.6	14	91	0	65	45	24	0	29	1.53
2981646--2981712	21	3.2	21	68	4	55	19	20	35	23	1.95
2981685--2981768	42	2.0	42	83	0	105	23	16	38	21	1.93
2983794--2983892	33	3.0	33	89	1	144	39	26	23	11	1.88
2983769--2983972	19	11.1	19	79	13	212	43	22	22	12	1.86
2983968--2984030	19	3.3	19	86	2	72	11	19	26	42	1.84
2983979--2984038	19	3.1	18	81	11	57	11	23	21	43	1.85
2984551--2984644	20	4.7	20	77	2	80	23	17	24	35	1.95
2984633--2984728	41	2.3	41	98	0	147	18	23	17	39	1.92
2984633--2984725	20	4.6	20	78	4	96	18	24	18	38	1.92
2986965--2987040	15	5.3	15	75	15	79	55	1	1	42	1.16
2986973--2987039	21	3.2	21	64	16	57	58	1	1	38	1.17
2986964--2987055	42	2.2	42	94	1	159	52	2	2	43	1.25
2987307--2987372	31	2.1	32	94	2	116	24	21	22	31	1.98
2990753--2990892	64	2.2	64	79	7	151	36	19	22	22	1.95
2992068--2992107	2	20.0	2	100	0	80	50	0	0	50	1.00
2992509--2992566	23	2.5	23	82	0	71	18	24	24	32	1.97
2993551--2993604	25	2.2	25	93	0	90	40	0	0	59	0.98
2993551--2993594	11	3.7	11	77	16	52	38	0	0	61	0.96
3001819--3001848	2	15.0	2	100	0	60	50	0	0	50	1.00
3001996--3002020	7	3.6	7	100	0	50	28	56	0	16	1.41
3005381--3005585	6	34.2	6	100	0	410	33	33	16	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3009151--3009175	10	2.5	10	100	0	50	48	20	0	32	1.50
3020175--3020224	23	2.2	23	89	7	75	38	14	18	30	1.89
3020185--3020232	23	2.1	23	88	0	69	39	10	20	29	1.86
3020344--3020388	23	2.0	23	81	0	54	42	11	13	33	1.79
3020134--3020526	157	2.5	157	90	0	606	39	12	13	33	1.83
3022809--3023837	199	5.2	200	89	2	1488	32	15	13	38	1.86
3022822--3023995	398	2.9	399	85	7	1507	32	15	13	39	1.86
3023806--3023858	21	2.5	21	90	0	79	52	9	11	26	1.67
3027727--3027752	2	13.0	2	100	0	52	50	0	0	50	1.00
3028406--3029171	199	3.8	198	87	2	1052	32	14	13	39	1.86
3036331--3036978	183	3.5	183	92	0	1017	28	14	13	43	1.84
3041493--3041594	50	2.1	48	85	8	138	39	2	5	51	1.41
3042007--3042060	27	2.0	26	82	3	63	53	5	3	37	1.42
3044299--3044337	21	2.0	20	90	10	62	51	0	2	46	1.14
3044299--3044338	20	2.0	21	90	5	64	50	0	2	47	1.14
3048156--3048207	24	2.2	24	86	6	70	13	42	5	38	1.68
3060823--3061122	150	2.0	150	96	0	555	46	17	13	24	1.83
3064346--3064397	24	2.2	24	96	0	95	36	28	17	17	1.92
3077902--3077967	32	2.1	32	97	0	123	46	36	4	12	1.61
3081837--3081876	18	2.2	18	100	0	80	20	47	27	5	1.70
3095742--3095783	18	2.3	18	87	0	57	26	40	9	23	1.85
3098726--3098791	30	2.2	30	94	0	114	50	18	13	18	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3107241--3107269	9	3.3	9	95	4	51	93	0	0	6	0.36
3118597--3118643	20	2.3	20	89	7	69	44	12	2	40	1.54
3121036--3121105	22	3.2	22	78	11	72	27	10	18	44	1.81
3127660--3127718	31	1.9	31	86	6	84	49	3	8	38	1.50
3127660--3127728	31	2.3	31	82	7	79	52	2	7	37	1.44
3127716--3127770	29	1.9	29	92	3	94	60	0	7	32	1.24
3131152--3131176	10	2.5	10	100	0	50	56	16	0	28	1.41
3134217--3134258	20	2.1	20	95	0	75	16	42	26	14	1.86
3137839--3138143	54	5.5	53	79	8	173	26	21	25	25	2.00
3137930--3138140	113	1.9	113	91	2	352	25	23	25	25	2.00
3138259--3138416	81	2.0	81	93	0	271	31	22	31	15	1.95
3149100--3149145	20	2.2	20	84	11	56	50	10	6	32	1.63
3149364--3149403	20	2.0	21	95	5	73	32	20	20	27	1.97
3152980--3153260	72	3.9	73	80	5	270	38	11	21	28	1.88
3155252--3155292	20	2.0	21	86	9	59	46	9	2	41	1.50
3155412--3155917	197	2.6	197	86	3	700	37	5	10	46	1.62
3155418--3155752	98	3.4	97	67	18	233	36	6	11	46	1.65
3155516--3155839	100	3.3	98	69	13	261	37	6	10	45	1.65
3155822--3155906	33	2.7	31	71	18	84	36	2	9	51	1.47
3157493--3157530	3	12.7	3	100	0	76	65	0	0	34	0.93
3161282--3161313	2	16.0	2	100	0	64	50	0	0	50	1.00
3167722--3167829	10	11.1	10	66	14	57	63	1	2	31	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3167742--3167793	18	2.7	20	82	8	63	57	3	3	34	1.35
3167741--3167799	21	2.8	21	75	17	59	61	3	3	32	1.29
3167782--3167835	6	8.2	6	80	13	54	77	0	1	20	0.86
3168771--3168824	20	2.7	20	85	8	65	31	24	18	25	1.97
3168886--3169356	237	2.0	237	98	0	906	38	14	21	25	1.91
3174400--3174480	22	3.6	22	78	6	83	27	14	18	39	1.90
3177002--3177047	13	3.8	13	75	16	53	58	19	10	10	1.61
3177001--3177056	23	2.4	23	90	0	85	57	17	12	12	1.66
3177217--3177283	14	5.1	14	77	14	70	61	16	10	11	1.57
3177232--3177285	24	2.2	24	93	0	90	59	16	11	12	1.61
3178092--3178128	13	2.8	13	91	4	56	59	8	0	32	1.27
3179161--3179200	7	5.7	7	93	0	71	15	2	0	82	0.77
3179390--3179419	6	5.0	6	100	0	60	0	50	0	50	1.00
3182590--3182648	21	2.8	21	84	0	91	18	42	32	6	1.77
3186705--3186757	3	17.3	3	81	11	63	35	1	0	62	1.06
3188237--3188352	30	3.8	31	81	10	123	15	13	10	60	1.59
3188237--3188337	31	3.3	31	84	6	125	15	11	8	63	1.51
3189089--3189121	17	2.1	16	88	11	50	48	6	3	42	1.43
3190145--3190206	30	2.1	30	93	0	106	12	14	11	61	1.57
3193590--3193645	20	2.8	20	91	0	94	33	14	28	23	1.94
3199871--3199993	64	1.9	66	84	3	169	38	17	20	24	1.93
3200535--3200597	21	3.0	21	81	4	81	28	23	22	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3201275--3201333	2	29.5	2	100	0	118	50	0	0	49	1.00
3202060--3202096	20	1.9	19	89	10	58	45	10	24	18	1.81
3205986--3206028	22	2.0	21	86	8	61	25	0	0	74	0.82
3209662--3209716	29	1.9	28	88	3	83	29	27	12	30	1.93
3215563--3215603	18	2.3	18	91	4	66	63	2	4	29	1.28
3217794--3217827	2	17.0	2	100	0	68	50	0	0	50	1.00
3220744--3220928	59	3.1	59	95	0	316	32	23	3	40	1.72
3222621--3222669	2	24.5	2	100	0	98	48	0	0	51	1.00
3224147--3224185	20	2.0	20	85	10	53	25	30	15	28	1.96
3226443--3226558	58	2.0	58	91	0	187	29	21	23	25	1.99
3232836--3235416	4	647.8	4	99	0	5092	24	0	25	49	1.50
3239503--3239572	22	3.3	22	67	15	65	24	2	27	45	1.67
3239490--3239582	42	2.2	42	98	0	177	25	2	23	48	1.62
3244340--3244398	22	2.8	21	87	10	84	59	1	0	38	1.08
3246311--3246427	61	1.9	61	94	0	207	26	21	13	38	1.91
3246566--3246631	25	2.7	25	95	2	116	46	10	1	40	1.47
3246872--3246907	14	2.6	14	90	0	54	36	8	19	36	1.82
3250160--3250229	3	22.3	3	74	8	50	52	2	4	40	1.36
3250178--3250230	19	2.7	19	79	2	61	50	3	1	43	1.30
3250160--3250238	16	5.7	13	71	17	52	53	2	3	40	1.33
3259771--3259816	3	15.7	3	86	4	67	60	2	0	36	1.09
3259953--3260229	105	2.6	105	84	4	333	23	19	16	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3260174--3260229	16	3.3	16	68	22	51	19	23	8	48	1.77
3260166--3260603	225	2.0	223	88	3	657	26	21	15	35	1.94
3261489--3261533	9	5.4	9	77	17	53	8	11	0	80	0.92
3261463--3261558	32	2.9	32	80	11	115	8	12	1	78	1.02
3261471--3261558	16	5.3	16	80	12	90	9	11	1	78	1.02
3274515--3274572	3	19.7	3	89	3	91	62	1	0	36	1.06
3276688--3276759	30	2.4	30	100	0	144	33	11	13	41	1.80
3279542--3279614	35	2.1	35	87	5	105	42	24	1	31	1.63
3279619--3279722	35	3.0	35	90	2	156	37	0	18	44	1.50
3287001--3287131	40	3.2	40	83	5	138	27	23	12	35	1.92

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