genome.fa.s8912.2.7.7.80.10.50.1000.17.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: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3753803

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  17  of  18  ( 2121 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)
3316553--3316999	109	4.1	109	94	0	770	31	26	19	21	1.98
3317452--3317523	35	2.1	35	94	0	126	40	11	20	27	1.87
3318038--3318071	2	17.0	2	100	0	68	50	0	0	50	1.00
3318010--3318045	19	1.9	19	88	5	56	25	5	0	69	1.10
3318109--3318144	18	1.9	18	88	5	54	22	5	0	72	1.05
3318410--3318469	24	2.4	25	76	15	63	13	13	1	71	1.22
3322749--3322785	20	1.9	19	89	10	58	45	10	24	18	1.81
3324957--3325107	60	2.5	60	82	6	189	41	3	22	33	1.70
3329895--3329923	11	2.6	11	100	0	58	44	0	0	55	0.99
3331870--3331906	2	18.5	2	100	0	74	51	0	0	48	1.00
3335569--3335593	8	3.1	8	100	0	50	52	12	0	36	1.39
3335718--3335753	12	3.3	11	92	7	56	0	25	0	75	0.81
3337800--3337846	25	1.9	24	91	4	76	40	6	4	48	1.48
3338141--3338165	7	3.6	7	100	0	50	16	0	36	48	1.46
3339948--3340031	35	2.4	35	91	0	132	28	17	22	30	1.97
3339992--3340060	23	3.0	23	78	2	75	27	24	21	26	1.99
3345497--3345577	40	2.0	40	97	0	153	35	20	7	35	1.81
3349538--3349585	14	3.2	16	86	13	59	37	0	0	62	0.95
3349538--3349603	31	2.1	33	83	11	84	37	1	1	59	1.16
3349715--3349776	2	31.0	2	100	0	124	50	0	0	50	1.00
3355102--3355156	24	2.3	24	100	0	110	40	0	21	38	1.54
3369239--3369270	14	2.3	14	94	0	55	37	9	0	53	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3369388--3369445	28	2.1	28	86	0	80	51	0	0	48	1.00
3370704--3370739	3	11.7	3	94	5	63	33	0	0	66	0.92
3370695--3370743	19	2.6	19	87	3	73	38	0	0	61	0.96
3371871--3371901	16	1.9	16	93	0	53	16	9	12	61	1.56
3376096--3376159	21	2.9	21	79	6	65	15	23	34	26	1.95
3382627--3382706	3	26.3	3	94	2	142	65	0	1	33	1.01
3385523--3385574	24	2.2	25	80	10	65	69	3	1	25	1.16
3385576--3385632	29	2.0	28	83	13	71	57	1	0	40	1.09
3385622--3385652	2	15.5	2	100	0	62	48	0	0	51	1.00
3387752--3387785	14	2.5	14	95	4	61	20	23	8	47	1.78
3389022--3389053	15	2.2	14	94	5	55	25	6	0	68	1.12
3392902--3392959	23	2.5	24	82	2	73	32	29	13	24	1.94
3395354--3395419	24	2.8	24	97	0	123	56	9	15	19	1.66
3399329--3399373	21	2.1	21	83	0	54	31	31	24	13	1.93
3400567--3400694	31	4.1	31	78	9	143	25	18	21	33	1.97
3400680--3401018	30	11.3	30	97	0	626	22	22	24	30	1.99
3401291--3401322	2	16.0	2	93	0	55	46	0	3	50	1.17
3409723--3409756	8	4.6	7	92	7	50	29	0	0	70	0.87
3409726--3409753	8	3.5	8	100	0	56	21	0	0	78	0.75
3410387--3410464	38	2.0	39	85	2	104	21	8	2	66	1.32
3410815--3410862	16	3.1	16	82	8	55	29	12	12	45	1.78
3410856--3410971	39	3.0	39	92	0	187	29	9	17	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3412638--3412663	3	8.7	3	100	0	52	65	0	0	34	0.93
3412919--3412974	28	2.0	28	85	0	76	46	25	10	17	1.80
3417451--3417522	20	3.7	20	86	1	101	43	5	16	34	1.72
3420656--3420696	21	2.0	21	90	4	66	58	4	0	36	1.20
3426969--3427041	8	9.1	8	78	0	74	39	27	0	32	1.57
3426983--3427049	16	4.2	15	82	3	62	43	23	0	32	1.54
3426971--3427049	24	3.3	24	81	0	95	39	25	0	35	1.56
3443285--3443324	19	2.1	19	86	9	55	50	7	25	17	1.72
3446956--3447001	17	2.7	17	93	0	74	23	19	34	21	1.96
3446991--3447042	20	2.5	21	75	15	54	32	13	30	23	1.93
3447569--3447642	22	3.3	22	86	5	96	21	20	27	31	1.98
3448681--3448720	20	2.0	21	85	5	55	52	7	2	37	1.43
3450263--3450293	16	2.0	15	93	6	53	22	6	0	70	1.09
3451934--3451978	19	2.3	19	88	3	63	46	22	6	24	1.75
3458737--3458804	22	3.1	22	71	12	68	23	20	20	35	1.96
3458748--3458825	22	3.5	22	77	6	86	23	23	21	32	1.98
3458737--3458821	44	1.9	44	85	4	118	22	23	21	32	1.98
3462585--3462639	20	2.8	20	97	0	101	45	10	9	34	1.71
3465744--3465820	2	39.0	2	97	2	147	50	0	0	49	1.00
3466884--3466947	21	3.4	20	66	29	59	31	4	18	45	1.70
3466876--3466994	35	3.3	36	89	5	170	32	5	18	43	1.72
3467404--3467437	16	2.1	16	88	0	50	32	8	23	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3471340--3471396	27	2.1	27	100	0	114	36	19	17	26	1.94
3471536--3471634	21	5.4	20	64	31	69	30	5	19	45	1.71
3471501--3471682	35	5.2	36	88	8	236	31	6	19	42	1.76
3472894--3472934	21	2.0	21	90	0	64	46	2	2	48	1.28
3475587--3475697	54	2.0	55	89	1	170	46	14	11	27	1.79
3479945--3480002	29	2.0	30	86	6	84	53	12	6	27	1.63
3489171--3489337	32	5.2	32	90	1	253	29	14	23	32	1.94
3489445--3489735	34	8.6	34	88	3	415	31	20	12	35	1.91
3489445--3489735	102	2.9	102	94	1	485	31	20	12	35	1.91
3489895--3490077	76	2.4	75	75	4	172	31	16	14	37	1.89
3490037--3490156	36	3.3	36	85	0	168	24	24	14	37	1.92
3490206--3490377	43	4.0	43	89	0	272	27	13	29	29	1.94
3490206--3490377	86	2.0	86	95	0	308	27	13	29	29	1.94
3490469--3490960	90	5.5	90	90	1	747	25	18	20	34	1.96
3493773--3493805	6	5.5	6	100	0	66	33	15	18	33	1.92
3495443--3495484	18	2.4	17	84	15	50	69	0	2	28	1.01
3496083--3496126	18	2.3	18	84	7	52	45	0	0	54	0.99
3501293--3501397	54	1.9	55	86	1	149	27	27	15	29	1.96
3501321--3501836	107	4.8	104	89	5	666	26	25	17	30	1.98
3501375--3501836	54	8.7	53	91	3	734	26	25	17	30	1.98
3501379--3501836	214	2.2	213	93	2	787	26	25	17	30	1.98
3503185--3503288	8	11.8	9	85	14	130	10	10	0	78	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3503186--3503300	16	6.5	18	82	13	134	10	11	0	78	0.97
3503187--3503300	29	4.3	25	80	16	76	10	11	0	78	0.98
3520651--3520694	23	1.9	23	86	9	63	31	2	0	65	1.05
3521553--3521657	31	3.6	28	77	17	92	41	1	0	55	1.17
3521583--3521685	31	3.3	31	84	2	107	38	4	1	54	1.33
3521825--3521869	16	2.8	16	100	0	90	37	20	17	24	1.93
3526093--3526131	20	2.0	20	90	5	62	20	15	20	43	1.88
3526183--3526215	15	2.3	15	89	5	50	57	9	15	18	1.63
3528512--3528551	21	1.9	21	94	0	71	30	15	7	47	1.72
3528546--3528644	33	3.0	33	94	1	164	32	7	15	45	1.73
3528630--3528683	13	4.2	13	79	9	65	37	3	11	48	1.57
3529079--3529132	14	3.6	14	79	13	63	33	12	12	40	1.82
3529097--3529129	17	1.9	17	100	0	66	39	12	12	36	1.80
3529222--3529253	16	2.0	17	88	11	50	43	21	21	12	1.86
3533733--3533791	21	2.8	21	85	14	86	57	3	0	38	1.15
3533959--3534000	14	2.9	15	82	7	50	50	2	4	42	1.36
3543660--3543737	33	2.3	34	91	6	124	29	14	21	34	1.93
3543853--3543972	4	31.8	4	78	11	128	41	0	58	0	0.98
3543855--3543972	11	10.8	11	79	13	129	41	0	58	0	0.98
3543856--3543967	15	7.7	15	84	11	119	40	0	59	0	0.97
3543859--3543959	7	13.6	7	85	10	85	39	0	60	0	0.97
3545129--3545207	37	2.1	37	88	0	113	50	12	11	25	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3546925--3546955	13	2.3	14	94	5	55	22	29	32	16	1.95
3546925--3546955	7	4.6	7	92	8	55	22	29	32	16	1.95
3560311--3560351	21	1.9	22	90	5	66	24	21	19	34	1.97
3560587--3560622	17	2.2	16	90	9	56	47	5	11	36	1.63
3563595--3563735	31	4.5	31	95	0	255	53	14	9	21	1.70
3564758--3564811	23	2.3	24	81	9	67	50	3	3	42	1.38
3565044--3565078	2	17.5	2	100	0	70	48	0	0	51	1.00
3566400--3566484	38	2.3	37	85	6	109	32	22	4	40	1.75
3566400--3566489	37	2.4	38	86	1	119	33	21	5	40	1.76
3568060--3568088	14	2.0	15	93	6	51	6	37	6	48	1.57

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18