genome.fa.s2890.2.7.7.80.10.50.1000.14.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  14  of  21  ( 2516 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)
3295862--3295906	18	2.4	19	81	11	56	60	4	2	33	1.29
3295929--3296273	39	9.3	37	79	15	228	45	7	3	44	1.48
3295937--3296114	36	5.0	33	75	19	155	44	5	5	45	1.47
3295929--3296255	78	4.4	73	81	14	297	44	7	3	44	1.48
3296243--3296282	13	3.0	13	92	7	71	52	7	2	37	1.43
3296209--3296308	53	2.0	49	86	7	137	48	6	2	44	1.39
3306309--3306607	155	1.9	155	100	0	598	51	17	11	20	1.75
3307638--3307695	21	2.8	21	97	0	107	12	27	39	20	1.88
3310301--3310354	21	2.6	21	82	11	67	12	27	33	25	1.93
3316806--3317053	38	6.5	38	77	4	232	39	13	14	32	1.84
3316806--3317053	114	2.2	114	81	4	268	39	13	14	32	1.84
3317885--3317918	16	2.1	16	94	0	59	52	11	5	29	1.61
3317948--3318213	38	7.0	38	77	5	252	39	15	12	32	1.85
3327290--3327503	58	3.7	58	89	1	313	33	11	19	35	1.87
3327471--3327586	55	2.1	55	84	7	148	44	6	15	33	1.71
3327574--3327600	14	1.9	14	100	0	54	55	7	7	29	1.55
3327795--3328389	68	8.8	68	86	1	798	31	16	24	28	1.96
3332086--3332141	20	2.8	20	79	15	62	32	14	28	25	1.94
3332544--3332759	58	3.7	58	91	0	360	35	10	18	35	1.85
3341894--3341923	16	1.9	15	93	6	51	40	0	30	30	1.57
3342943--3343022	32	2.5	32	83	0	106	12	25	36	26	1.91
3346401--3346447	20	2.4	19	82	10	67	53	10	17	19	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3346016--3346479	173	2.6	177	86	3	639	42	13	16	26	1.86
3348671--3348732	20	3.0	21	88	4	81	37	11	33	17	1.86
3350442--3350490	19	2.6	19	100	0	98	34	0	10	55	1.34
3350724--3351677	199	4.8	200	93	2	1640	36	15	18	30	1.91
3353150--3353231	12	6.8	12	94	0	137	41	7	32	18	1.78
3353150--3353231	6	13.7	6	82	0	101	41	7	32	18	1.78
3354535--3354776	119	2.0	120	91	2	389	32	13	15	38	1.86
3354838--3355083	120	2.0	120	91	0	393	33	12	15	38	1.85
3354469--3358277	303	12.6	303	97	0	7046	33	14	16	34	1.90
3355140--3355386	120	2.1	120	94	1	433	33	13	15	36	1.87
3355443--3355689	120	2.1	120	95	0	440	31	14	16	37	1.89
3355746--3355992	120	2.1	120	92	0	413	31	14	16	37	1.88
3356049--3356295	120	2.1	120	92	0	413	33	13	15	37	1.87
3356352--3356598	120	2.1	120	95	0	440	32	14	15	37	1.88
3356659--3356897	120	2.0	120	91	0	388	33	14	14	38	1.86
3356958--3357204	120	2.1	120	95	0	440	33	13	15	37	1.87
3357567--3357805	120	2.0	120	94	1	417	31	13	16	38	1.88
3357870--3358108	120	2.0	120	93	1	408	31	14	16	38	1.88
3361001--3361073	23	3.2	23	90	0	110	35	5	20	38	1.76
3361491--3361563	23	3.2	23	90	0	110	35	5	20	38	1.76
3361980--3362052	23	3.2	23	92	0	119	34	5	21	38	1.77
3360816--3362454	489	3.4	488	96	0	2999	41	7	10	39	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3367326--3367645	53	6.0	53	81	5	297	39	12	21	26	1.89
3367326--3367704	53	7.0	52	81	3	281	38	12	21	27	1.89
3367470--3367549	26	3.1	26	66	25	69	38	15	22	23	1.92
3367537--3367705	59	2.9	59	86	0	221	37	14	22	26	1.92
3376415--3377779	55	24.9	54	79	6	1255	30	19	22	27	1.98
3378013--3378126	2	61.5	2	78	17	122	50	1	0	46	1.17
3386201--3386248	3	15.7	3	95	4	87	64	0	0	35	0.94
3388145--3388275	67	2.0	67	100	0	262	52	11	15	20	1.73
3395087--3395117	2	15.5	2	100	0	62	51	0	0	48	1.00
3395119--3395242	60	2.0	60	81	7	144	46	3	16	33	1.63
3397679--3397730	2	26.0	2	92	0	86	50	3	0	46	1.20
3398661--3398687	2	13.5	2	100	0	54	51	0	0	48	1.00
3401069--3401506	83	5.3	83	92	0	705	23	22	13	40	1.90
3401318--3401463	46	3.4	44	68	20	128	23	25	12	38	1.90
3401511--3401705	91	2.1	90	91	0	309	25	19	17	37	1.93
3401749--3401822	20	3.7	20	87	0	112	40	20	16	22	1.91
3401747--3401823	40	1.9	40	100	0	154	40	20	15	23	1.91
3402534--3402623	47	1.9	47	93	0	153	32	21	6	40	1.79
3407997--3408115	63	1.9	63	98	0	229	37	18	19	24	1.94
3408432--3408771	59	5.8	59	74	9	193	35	10	22	30	1.89
3408460--3408678	59	3.7	59	79	10	225	37	10	23	29	1.87
3408452--3408737	118	2.4	116	82	6	333	36	10	22	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3408929--3408962	17	1.9	18	88	5	52	38	8	17	35	1.81
3409383--3409414	12	2.7	12	95	0	55	18	21	21	37	1.94
3410889--3410927	13	2.9	14	88	7	53	41	17	20	20	1.91
3410884--3410930	20	2.3	20	82	13	53	42	17	19	21	1.89
3416747--3416784	19	2.0	19	94	0	67	31	7	21	39	1.82
3416961--3417353	173	2.3	173	95	1	709	22	12	19	45	1.84
3419089--3419168	36	2.2	36	81	0	97	32	8	40	18	1.82
3419246--3419317	33	2.2	32	87	2	99	54	0	0	45	0.99
3419937--3419992	28	2.1	26	83	6	67	66	0	3	30	1.09
3421294--3421324	16	2.0	16	93	6	55	48	6	19	25	1.72
3422475--3422516	20	2.1	20	86	8	59	28	28	0	42	1.56
3422531--3422564	17	1.9	18	88	5	52	29	0	5	64	1.17
3422531--3422599	29	2.4	29	83	11	90	30	0	4	65	1.12
3424657--3424713	3	19.0	3	96	0	105	31	0	35	33	1.58
3424840--3424873	14	2.4	14	90	0	50	17	0	8	73	1.08
3424906--3424930	13	1.9	13	100	0	50	20	0	8	72	1.10
3429737--3429790	27	2.0	28	85	3	74	29	3	3	62	1.29
3429737--3429790	28	2.0	27	85	10	74	29	3	3	62	1.29
3430708--3430753	25	1.9	24	86	8	67	13	13	4	69	1.33
3431686--3431735	15	3.3	15	73	21	50	56	0	0	44	0.99
3432406--3432436	2	15.5	2	100	0	62	48	0	0	51	1.00
3440308--3440341	16	2.1	16	94	0	59	32	26	8	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3464805--3464856	20	2.6	19	82	11	61	36	19	26	17	1.94
3464879--3464952	19	3.7	19	77	12	76	35	16	22	25	1.95
3465535--3465824	45	6.9	45	72	17	194	35	13	24	27	1.93
3465580--3465777	79	2.5	79	89	0	288	34	12	23	28	1.92
3465456--3465723	124	2.2	124	90	1	412	33	12	25	28	1.92
3465758--3465880	47	2.6	47	90	0	183	43	11	20	24	1.84
3465807--3465880	27	3.0	27	64	25	72	47	9	18	24	1.78
3470737--3471091	79	4.5	79	90	0	539	35	11	25	26	1.91
3470946--3471091	34	3.9	37	73	20	124	34	11	25	28	1.91
3471128--3471181	27	2.0	27	89	7	83	44	12	20	22	1.85
3472850--3472896	21	2.2	21	100	0	94	68	0	14	17	1.22
3474488--3474568	21	3.8	21	77	9	83	18	24	34	22	1.96
3474510--3474570	20	2.9	21	85	7	79	19	26	32	21	1.97
3480678--3480796	37	3.2	36	86	4	166	24	15	20	39	1.91
3480954--3481287	37	8.9	37	79	4	337	24	17	23	35	1.95
3480721--3481250	116	4.7	115	80	6	537	24	17	23	34	1.95
3480677--3481250	227	2.5	222	77	7	634	25	17	22	35	1.95
3480678--3481404	74	9.6	74	69	12	377	24	17	22	35	1.96
3481316--3481404	37	2.4	37	84	1	124	23	15	23	37	1.93
3482739--3482791	22	2.4	22	96	0	97	16	16	35	30	1.92
3483953--3483991	21	1.9	21	89	5	62	12	12	0	74	1.08
3488135--3488170	6	6.0	6	86	0	54	52	13	13	19	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3488122--3488167	18	2.5	18	86	10	58	54	13	13	19	1.71
3488523--3488628	55	1.9	55	96	0	194	22	22	11	43	1.85
3492219--3492266	3	16.0	3	91	0	78	64	2	2	31	1.16
3492224--3492275	15	3.5	15	89	0	77	61	3	5	28	1.37
3492396--3492422	14	1.9	14	100	0	54	40	14	0	44	1.46
3493852--3493917	33	1.9	35	82	11	84	42	7	22	27	1.80
3498476--3498664	94	2.0	95	84	3	247	36	15	22	24	1.94
3498495--3498700	95	2.2	94	82	4	245	37	15	22	25	1.93
3499030--3499189	56	2.9	54	87	7	209	33	8	23	34	1.85
3499495--3499537	20	2.2	20	100	0	86	27	13	20	37	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21