genome.fa.s8295.2.7.7.80.10.50.1000.4.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: VEPZ01008295.1 Hibiscus syriacus cultivar Beakdansim tig00110962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  741301

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 485 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)
538780--539137	23	15.6	23	70	18	160	49	4	4	41	1.42
538673--539200	8	68.9	8	62	24	63	49	4	4	41	1.43
538570--539194	74	8.5	74	81	13	604	49	4	4	41	1.44
538570--538931	37	9.6	37	83	10	452	49	4	4	41	1.44
538617--539151	51	10.3	51	73	15	411	49	4	4	41	1.43
538579--539190	14	47.8	14	70	20	389	49	4	4	41	1.45
540052--540159	51	2.2	47	86	8	144	25	18	12	43	1.85
540298--540383	32	2.7	32	90	0	145	34	32	24	8	1.85
540365--540472	47	2.3	47	93	0	189	37	22	19	21	1.95
541046--541140	2	48.0	2	90	2	138	47	1	2	49	1.20
543708--543758	23	2.2	23	78	0	57	41	3	13	41	1.63
548224--548283	24	2.8	21	71	21	52	48	0	1	50	1.11
557766--557813	25	2.0	25	83	4	62	22	4	14	58	1.54
558665--558697	17	1.9	17	100	0	66	30	18	9	42	1.81
558858--558907	20	2.2	23	76	23	61	36	2	0	62	1.07
558864--558902	20	1.9	21	94	5	71	41	0	0	58	0.98
564170--564303	71	1.9	71	90	0	214	29	20	23	26	1.99
572585--572618	16	2.1	16	88	0	50	35	0	0	64	0.94
573375--573586	82	2.6	82	93	1	361	30	25	24	19	1.98
577518--577555	21	1.9	20	89	10	60	23	23	0	52	1.47
579305--579341	17	2.2	18	90	9	60	45	0	0	54	1.00
579312--579353	19	2.4	19	84	11	54	57	2	0	40	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583750--583787	21	1.9	20	89	10	60	23	23	0	52	1.47
585880--585915	16	2.2	17	95	5	65	44	0	0	55	0.99
588912--589377	215	2.2	216	85	2	630	52	15	10	21	1.73
590003--590137	29	4.7	28	78	7	119	37	15	22	23	1.93
589987--590137	58	2.6	58	83	5	180	38	16	21	23	1.93
596894--597405	41	12.2	41	76	9	352	28	18	18	34	1.95
596894--597133	40	5.9	40	83	5	241	30	17	17	33	1.94
596894--597405	82	6.1	82	77	9	467	28	18	18	34	1.95
597040--597309	93	3.0	93	76	14	271	28	19	18	33	1.95
597131--597413	125	2.3	122	84	4	365	28	18	18	34	1.95
597136--597416	84	3.4	82	82	4	332	29	18	18	33	1.95
600828--600907	42	1.9	43	87	5	119	26	20	22	31	1.98
601626--601700	29	2.6	29	82	4	89	37	17	22	22	1.94
602821--602864	17	2.6	17	92	0	79	34	11	20	34	1.88
603234--603595	199	1.8	195	90	3	582	40	14	12	31	1.84
604361--604386	13	2.0	13	100	0	52	84	15	0	0	0.62
605821--605944	63	2.0	63	82	6	153	34	21	19	24	1.96
606499--606571	18	3.9	18	75	7	74	21	21	27	28	1.99
606496--606572	38	2.0	38	85	5	102	23	22	25	28	1.99
606999--607024	12	2.2	12	100	0	52	38	0	0	61	0.96
614685--615099	206	2.0	207	99	0	814	28	13	24	33	1.93
620371--620399	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
629816--629916	31	3.4	31	72	10	120	53	4	3	37	1.41
629811--629929	58	2.1	58	98	0	229	53	5	3	36	1.42
630466--630541	20	3.8	20	82	1	80	40	21	26	11	1.87
630739--630769	16	1.9	16	100	0	62	51	25	9	12	1.70
630903--631019	36	3.3	36	64	23	86	14	12	17	55	1.69
630897--631029	70	1.9	70	89	6	207	14	12	17	55	1.69
632287--632342	23	2.4	23	80	14	62	7	8	10	73	1.26
632287--632362	12	6.3	12	72	11	57	5	7	11	75	1.19
632302--632362	25	2.5	23	77	15	61	3	8	11	77	1.11
632328--632362	13	2.8	13	95	4	63	0	5	14	80	0.89
632934--632958	9	2.8	9	100	0	50	56	8	0	36	1.29
643395--643460	33	2.0	33	100	0	132	39	30	15	15	1.88
645846--645870	12	2.1	12	100	0	50	44	0	0	56	0.99
653541--653748	102	2.0	102	97	0	389	48	8	10	32	1.67
658639--658706	33	2.1	33	94	0	118	48	5	14	30	1.68
658891--658938	24	2.0	24	91	0	78	54	12	14	18	1.71
659934--660024	34	2.6	36	87	3	132	29	5	17	47	1.70
660680--661044	176	2.0	176	89	7	558	45	8	3	42	1.51
663204--663243	16	2.4	17	91	4	64	35	5	17	42	1.71
663716--663871	31	5.0	31	91	1	233	21	21	21	35	1.96
667629--667689	21	3.2	21	63	29	55	32	4	19	42	1.73
667621--667740	35	3.3	36	87	6	172	32	5	19	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669189--669243	28	1.9	28	88	3	83	54	1	0	43	1.10
673275--673318	21	2.0	21	86	4	61	38	15	6	38	1.75
673804--673854	17	2.9	17	77	5	57	54	9	0	35	1.33
677974--678227	20	12.2	20	75	10	197	39	24	19	16	1.92
678031--678218	42	4.4	42	84	9	185	36	26	19	17	1.94
678057--678218	62	2.5	62	92	4	252	37	26	19	17	1.93
677976--678224	62	4.0	60	81	9	218	38	25	19	16	1.92
678323--678349	6	4.5	6	100	0	54	33	51	14	0	1.43
678846--678940	6	16.5	6	98	1	162	0	16	52	30	1.44
679036--679347	20	15.2	20	75	14	271	16	18	24	39	1.91
679036--679290	42	6.2	42	89	4	385	17	18	25	38	1.92
682116--682159	3	15.7	3	78	21	51	34	0	0	65	0.93
682117--682158	5	8.2	5	89	10	59	35	0	0	64	0.94
682180--682222	22	2.0	22	86	9	61	30	46	0	23	1.52
682181--682228	22	2.2	22	81	7	53	33	45	0	20	1.52
684468--684500	10	3.2	11	83	16	52	18	9	0	72	1.10
684458--684498	20	2.0	21	90	4	66	17	9	0	73	1.09
686370--686435	19	3.5	19	74	14	64	78	1	15	4	0.98
686370--686436	9	7.1	9	73	15	55	79	1	14	4	0.97
687485--687571	32	2.7	32	78	7	95	27	16	22	33	1.95
688398--688522	36	3.5	35	78	15	139	27	20	12	40	1.88
688447--688511	21	3.4	21	64	24	61	26	20	10	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688417--688530	36	3.1	36	91	1	192	28	19	13	39	1.89
688417--688600	67	2.7	65	85	10	217	28	19	12	39	1.88
688879--688917	3	12.7	3	84	15	53	30	0	0	69	0.89
688879--688917	13	2.9	13	82	17	53	30	0	0	69	0.89
688878--688917	16	2.6	16	96	4	73	30	0	0	70	0.88
688942--688985	22	2.0	21	87	12	63	29	43	0	27	1.55
691903--691953	22	2.3	22	89	3	84	29	19	23	27	1.98
693329--693489	64	2.5	63	84	8	191	27	21	17	33	1.96
697709--698419	354	2.0	354	91	0	1152	31	20	17	29	1.96
702021--702470	229	2.0	228	94	1	794	45	8	7	39	1.61
702536--702581	20	2.3	19	89	10	74	54	10	17	17	1.70
702712--702754	20	2.3	19	88	11	63	51	11	16	20	1.75
704976--705040	21	3.1	21	81	0	76	38	15	30	15	1.88
705074--705139	33	2.0	33	90	0	105	28	0	48	22	1.51
706931--706979	19	2.6	19	93	0	80	30	2	10	57	1.43
707098--708263	199	5.9	198	96	1	2108	36	15	16	30	1.90
708224--708275	21	2.3	23	70	12	54	38	9	13	38	1.77
709728--709789	18	3.4	18	79	0	79	37	9	35	17	1.83
709728--709819	6	15.3	6	79	0	67	36	7	34	20	1.81
709743--709823	3	27.0	3	75	0	72	35	6	34	23	1.80
709731--709807	36	2.1	36	90	0	118	35	9	35	20	1.85
709731--709819	12	7.4	12	84	0	88	35	7	34	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
709728--709819	18	5.1	18	77	0	76	36	7	34	20	1.81
711324--712181	183	4.7	182	96	1	1529	34	15	16	33	1.90
713229--713377	23	6.5	23	88	0	217	34	5	19	40	1.74
713229--713377	46	3.2	46	96	0	271	34	5	19	40	1.74
713796--713832	18	2.1	18	89	0	56	32	5	10	51	1.60
713788--713834	24	2.0	24	86	0	67	34	4	14	46	1.64
714089--714175	39	2.2	39	89	0	138	48	18	13	19	1.81
714596--714668	23	3.2	23	88	0	101	34	4	21	39	1.73
715024--715096	23	3.2	23	86	0	92	34	4	20	41	1.72
717286--717314	10	2.9	10	100	0	58	0	6	41	51	1.28

Tables:   1   2   3   4   5