genome.fa.s8105.2.7.7.80.10.50.1000.4.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   25   26   27   28   29   30   

This is table  4  of  30  ( 3521 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)
636709--636774	21	3.1	21	76	12	64	21	1	1	75	0.96
636623--636762	39	3.5	39	80	12	140	27	2	1	68	1.09
636716--636784	13	5.3	13	71	11	52	21	2	1	73	1.04
636913--636942	15	2.0	15	93	0	51	23	16	0	60	1.36
639912--639940	10	3.0	10	95	5	51	82	10	6	0	0.83
639894--639974	17	4.5	17	73	16	58	77	7	14	0	0.97
639914--640004	46	2.0	46	82	10	114	75	8	14	1	1.08
640626--640680	22	2.5	22	100	0	110	36	27	12	23	1.91
641096--641131	18	2.0	18	88	0	54	19	8	30	41	1.81
641611--641892	36	8.0	36	80	8	321	25	19	14	40	1.89
641569--641892	72	4.6	73	77	10	248	26	19	15	38	1.91
641667--641855	102	1.9	102	89	2	299	26	18	13	40	1.88
641631--641955	138	2.4	137	85	2	454	27	20	12	39	1.88
641850--642007	67	2.4	67	85	5	196	32	21	8	37	1.83
641841--642007	65	2.5	65	83	4	192	31	21	8	38	1.83
642628--643288	105	6.3	105	90	2	945	33	26	17	22	1.96
643836--643937	34	2.9	36	91	5	172	44	13	14	27	1.83
644238--644299	23	2.8	22	75	20	58	20	6	4	67	1.32
644253--644298	24	2.0	23	83	12	58	19	6	4	69	1.28
644382--644472	8	10.9	8	73	17	69	17	3	1	78	0.95
644370--644432	28	2.1	29	85	11	83	25	3	0	71	1.01
644387--644439	20	2.8	19	81	15	65	22	1	0	75	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644345--644439	39	2.4	39	82	8	113	28	2	0	69	1.00
644376--644471	47	2.0	47	82	9	115	18	4	1	76	1.01
644370--644443	28	2.5	29	80	12	80	24	2	0	72	0.97
644435--644485	21	2.4	21	86	0	75	15	5	1	76	1.07
644372--644500	51	2.5	52	80	16	137	20	4	0	73	1.06
644447--644515	23	3.0	23	78	17	74	15	8	1	73	1.14
644479--644541	32	2.0	30	82	11	74	15	9	3	71	1.25
648588--648664	37	2.1	37	95	0	136	40	20	9	29	1.83
657729--657775	25	1.9	25	91	4	78	53	0	2	44	1.12
659169--659229	2	30.5	2	96	0	113	47	0	0	52	1.00
665650--665678	15	1.9	15	100	0	58	6	68	17	6	1.34
668090--668138	18	2.7	18	90	0	80	20	24	28	26	1.99
668534--668573	21	1.9	21	85	10	55	57	0	17	25	1.40
674689--674730	23	1.9	21	90	9	66	50	2	0	47	1.14
674802--674837	16	2.2	17	90	5	56	61	0	0	38	0.96
674788--674842	22	2.6	22	82	5	60	56	0	0	43	0.99
675068--675167	37	2.8	36	86	10	143	43	13	17	27	1.85
675334--675366	11	2.9	12	86	13	52	6	9	0	84	0.76
675338--675366	10	2.7	11	94	5	51	3	6	0	89	0.57
678933--678979	14	3.1	16	82	14	55	80	8	10	0	0.89
678982--679043	16	3.8	17	71	14	51	72	8	17	1	1.17
678998--679042	23	2.0	23	86	8	65	73	8	15	2	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679668--679718	22	2.3	22	93	0	84	35	29	11	23	1.90
680560--680893	36	9.5	35	75	11	200	26	18	14	40	1.90
680570--680893	72	4.6	73	77	10	230	26	18	15	39	1.90
680613--680893	72	4.0	71	77	10	308	25	19	14	40	1.89
680710--681025	65	4.7	65	75	10	204	29	19	11	39	1.87
680668--680856	102	1.9	102	88	2	290	26	17	13	41	1.88
680632--680956	138	2.4	137	85	2	454	27	19	12	40	1.88
680842--681024	68	2.7	67	84	4	219	30	22	9	37	1.86
681629--682289	105	6.3	105	90	2	927	33	25	17	22	1.96
682839--682937	34	2.8	36	83	11	125	43	13	15	28	1.83
683665--683754	4	21.2	4	73	22	53	21	1	3	74	1.03
683681--683749	5	14.4	5	76	11	56	20	1	4	73	1.07
684136--684197	23	2.7	23	82	7	72	48	0	1	50	1.10
687969--688052	25	3.5	25	85	9	104	33	23	21	21	1.97
691304--691346	20	2.2	20	86	0	59	30	13	20	34	1.92
691979--692018	15	2.7	15	96	3	73	15	27	40	17	1.89
704335--704496	63	2.6	65	84	4	206	26	16	22	34	1.95
714033--714192	65	2.5	64	84	7	200	30	18	20	30	1.97
714677--714728	15	3.5	15	73	19	54	44	13	7	34	1.72
715124--715172	21	2.4	20	86	10	64	38	26	6	28	1.80
719182--719271	28	3.2	28	100	0	180	28	32	21	17	1.96
721244--721288	23	2.0	23	90	0	72	28	28	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
721256--721303	17	2.7	18	83	3	62	31	27	14	27	1.95
727507--727568	31	2.2	28	83	13	74	17	22	29	30	1.97
730362--730446	43	2.0	43	90	0	134	35	11	20	32	1.89
730433--730547	60	1.9	60	80	3	133	38	9	10	41	1.72
731868--731943	36	2.1	36	95	0	134	43	13	10	32	1.78
733170--733220	24	2.2	23	89	10	77	62	0	1	35	1.06
735087--735234	36	4.1	36	70	13	101	41	3	6	47	1.46
735148--735461	35	9.1	36	77	13	272	42	2	7	48	1.44
735465--735524	4	15.0	4	79	6	68	25	5	0	70	1.08
735480--735530	25	2.1	24	92	3	84	21	5	1	70	1.18
735672--735702	16	2.0	15	93	6	53	19	41	25	12	1.87
736683--736735	19	2.8	19	82	0	61	18	3	0	77	0.92
741779--742573	169	4.8	167	85	4	858	30	24	20	25	1.98
741779--742573	249	3.2	248	87	2	988	30	24	20	25	1.98
743235--743303	36	1.9	36	82	11	88	43	2	5	47	1.42
743280--743391	35	3.1	36	74	11	113	44	4	7	43	1.51
743787--744077	35	8.2	36	81	9	298	41	2	7	48	1.44
743793--744077	106	2.7	103	83	7	324	41	2	7	48	1.44
743872--744037	71	2.4	71	93	1	280	41	0	7	50	1.34
744081--744140	4	15.0	4	79	6	68	25	5	0	70	1.08
744096--744146	25	2.1	24	92	3	84	21	5	1	70	1.18
744288--744318	16	2.0	15	93	6	53	19	41	25	12	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
745295--745346	19	2.8	18	77	11	52	19	3	0	76	0.93
745839--745907	34	2.0	34	88	0	102	44	15	4	34	1.67
746687--746719	12	2.6	13	90	4	50	24	0	30	45	1.53
747142--747223	21	3.8	22	78	15	100	36	21	21	19	1.95
747135--747232	42	2.3	42	96	0	178	35	22	21	20	1.96
747135--747238	21	4.9	20	73	15	86	35	22	22	20	1.96
747306--747352	19	2.5	19	96	0	85	23	21	23	31	1.98
748131--748172	22	1.9	22	85	0	57	45	0	9	45	1.36
751021--751057	18	2.1	18	89	0	56	35	48	0	16	1.46
751376--751415	16	2.5	16	95	0	71	5	15	32	47	1.66
752412--752560	55	2.7	55	94	0	253	29	20	16	32	1.95
752581--753411	54	15.7	54	83	4	1007	22	23	19	34	1.96
752581--753411	107	7.8	107	85	3	1017	22	23	19	34	1.96
755148--755208	10	5.9	10	81	12	61	1	11	4	81	0.90
755148--755237	23	4.2	20	81	13	81	4	10	4	81	0.98
755145--755233	11	8.4	10	75	12	72	4	8	3	83	0.90
755145--755233	10	9.6	9	75	13	58	4	8	3	83	0.90
757469--757526	20	2.9	20	78	14	66	10	17	0	72	1.11
760180--760214	12	2.8	13	91	8	56	51	17	17	14	1.77
760400--760536	21	6.6	21	95	0	177	14	23	21	40	1.90
760403--760536	42	3.2	42	91	1	198	14	23	20	40	1.90
763697--763733	18	2.1	18	89	0	56	35	48	0	16	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
764052--764091	16	2.5	16	95	0	71	5	15	32	47	1.66
768225--768270	21	2.2	21	100	0	92	43	15	8	32	1.77
768685--768789	34	3.0	35	86	5	140	48	19	1	30	1.59
773313--773426	35	3.2	36	86	4	151	43	17	3	35	1.66
775090--775121	15	2.1	15	94	0	55	0	21	0	78	0.76
775176--775212	19	1.9	19	89	10	58	5	24	10	59	1.52
775614--775715	3	34.0	3	81	0	105	55	0	0	43	1.06
776150--776789	113	5.7	113	88	4	927	27	20	14	37	1.91
776046--776785	226	3.3	227	86	4	1005	27	20	14	37	1.91
776048--776821	338	2.3	335	90	3	1190	28	19	14	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   22   23   24   25   26   27   28   29   30