genome.fa.s1129.2.7.7.80.10.50.1000.4.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  4  of  89  ( 10573 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)
650055--650102	23	2.1	23	100	0	96	37	12	0	50	1.41
652024--652078	6	8.8	6	92	7	92	69	14	16	0	1.20
652025--652082	13	4.5	13	95	4	109	68	15	15	0	1.20
652024--652082	19	3.1	19	90	9	102	67	15	16	0	1.23
652024--652078	25	2.2	25	100	0	110	69	14	16	0	1.20
657449--657560	3	38.0	3	87	7	167	34	0	0	64	1.00
657485--657575	24	3.8	24	84	12	73	39	0	0	60	0.97
657585--657627	22	1.9	23	85	4	61	39	34	16	9	1.80
658858--658934	38	2.0	39	82	10	95	27	11	1	59	1.40
658877--658909	14	2.3	15	89	5	50	30	3	0	66	1.06
668844--668901	22	2.6	22	91	0	89	32	17	13	36	1.89
669414--669743	164	2.0	165	94	1	583	35	13	12	38	1.83
669740--670333	73	8.0	73	92	2	927	26	20	21	31	1.98
670491--670549	3	20.0	3	83	10	77	33	0	1	64	1.04
670574--670631	22	2.6	21	81	13	55	44	34	10	10	1.73
670587--670631	22	2.0	23	86	8	65	44	35	8	11	1.71
672600--672639	11	3.3	13	80	13	50	50	2	0	47	1.14
672682--672716	17	2.0	18	88	5	54	54	2	5	37	1.39
676114--676195	33	2.5	33	95	0	146	42	14	18	24	1.87
676920--676956	19	1.9	19	94	0	65	32	29	16	21	1.95
676982--677053	20	3.6	20	77	7	74	29	23	20	26	1.99
676982--677075	40	2.3	40	85	5	118	32	22	19	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
677623--677722	20	5.4	19	78	14	86	12	17	23	48	1.80
677686--677729	20	2.2	20	91	0	70	11	13	20	54	1.69
679631--679729	33	2.9	33	84	3	126	44	18	21	16	1.87
679696--679733	20	1.9	20	94	0	67	47	18	21	13	1.82
679734--679772	19	2.0	20	85	5	53	12	12	20	53	1.71
679777--679825	20	2.5	20	89	0	80	14	16	26	42	1.86
679812--679855	20	2.2	20	91	0	70	13	11	22	52	1.72
679739--679848	40	3.1	32	69	20	76	13	14	22	49	1.79
680339--680453	21	5.5	21	70	4	79	22	36	18	22	1.95
680333--680453	42	2.9	42	76	7	129	22	35	18	23	1.95
681989--682070	20	4.2	19	72	10	67	42	19	18	19	1.89
682043--682079	19	1.9	19	100	0	74	32	16	21	29	1.95
682120--682185	20	3.3	20	93	0	105	28	21	18	31	1.96
682356--682390	18	1.9	18	94	0	61	17	2	25	54	1.57
684638--684691	24	2.2	24	93	0	90	40	20	18	20	1.91
685345--685379	17	2.1	17	100	0	70	25	5	34	34	1.80
685529--685597	20	3.4	20	76	11	86	20	17	28	33	1.95
685509--685677	41	4.2	41	73	13	136	27	15	23	33	1.95
686345--686396	3	17.0	3	76	11	52	36	1	1	59	1.19
688142--688177	2	18.0	2	100	0	72	50	0	0	50	1.00
694629--694657	6	4.8	6	100	0	58	65	0	0	34	0.93
709205--709229	7	3.6	7	100	0	50	32	28	28	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
712880--712944	32	2.0	32	94	5	114	55	23	3	18	1.56
716385--716433	19	2.6	19	96	0	89	20	22	30	26	1.98
716400--716565	65	2.6	64	78	11	178	27	18	23	31	1.97
717024--717050	2	13.5	2	100	0	54	51	0	0	48	1.00
719207--719287	23	3.6	22	76	8	83	25	23	25	24	2.00
719207--719269	21	2.9	22	80	4	74	22	25	25	26	2.00
719926--719992	25	2.7	25	97	0	125	29	41	10	17	1.83
720098--720164	30	2.3	30	81	2	73	43	0	0	56	0.99
720235--720315	36	2.2	36	86	0	117	16	38	13	32	1.87
724852--724877	2	13.0	2	100	0	52	50	0	0	50	1.00
726261--726321	3	20.7	3	83	9	72	62	0	0	37	0.96
726248--726321	27	2.8	27	84	10	98	59	0	0	40	0.97
726248--726322	9	7.9	10	77	12	70	58	0	0	41	0.98
726658--727207	113	4.9	113	87	1	753	28	19	14	37	1.91
728356--728404	16	2.8	17	81	12	64	48	6	8	36	1.58
732285--732315	9	3.6	9	91	8	55	54	0	22	22	1.44
736086--736117	15	2.1	15	94	0	55	46	9	18	25	1.79
741610--741664	3	18.7	3	81	10	69	63	0	0	36	0.95
741598--741666	21	3.5	20	70	23	56	59	0	0	40	0.97
743074--743227	45	3.4	44	81	12	188	30	17	22	29	1.96
748049--748094	18	2.7	18	83	12	53	21	0	4	73	1.00
749006--749044	5	7.6	5	88	5	60	64	0	2	33	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
749006--749052	21	2.3	20	85	3	58	65	0	4	29	1.11
748992--749072	26	3.2	24	78	14	76	66	2	4	25	1.24
751503--751562	3	19.7	3	83	10	77	63	0	0	36	0.95
751964--752011	22	2.1	23	85	11	64	72	10	0	16	1.10
752024--752410	37	10.4	37	84	6	487	41	8	2	47	1.49
759600--759631	15	2.1	15	100	0	64	18	12	12	56	1.67
760039--760100	25	2.5	26	84	7	83	37	6	24	32	1.81
763735--763768	15	2.3	15	94	0	59	44	0	0	55	0.99
763907--763937	11	2.7	11	95	5	53	38	0	19	41	1.51
766478--766502	2	12.5	2	100	0	50	48	0	0	52	1.00
766916--767036	40	2.9	41	80	11	106	24	19	17	38	1.92
766966--767068	40	2.5	42	84	3	120	23	20	18	37	1.94
768676--768711	14	2.6	14	86	0	54	69	0	0	30	0.89
773121--773174	18	3.0	18	86	0	72	24	14	33	27	1.94
775006--775049	18	2.4	18	96	3	79	25	2	29	43	1.67
777129--777172	21	2.1	21	86	0	61	31	13	20	34	1.92
777238--777274	18	2.1	17	95	5	65	16	16	35	32	1.91
778789--778844	22	2.5	22	91	0	85	7	28	41	23	1.80
779358--779423	26	2.5	27	97	2	125	15	7	18	59	1.59
784062--784520	117	3.9	117	81	7	530	33	24	16	26	1.96
784062--784577	124	4.3	122	81	7	526	33	23	16	26	1.96
784062--784577	241	2.1	241	82	4	623	33	23	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
785332--785365	3	11.0	3	93	6	59	64	0	0	35	0.94
793563--793602	20	2.0	20	85	9	55	52	0	0	47	1.00
793687--793767	19	4.3	19	70	9	67	51	1	1	45	1.16
793933--794006	22	3.4	22	72	14	64	55	1	1	41	1.17
794584--794615	15	2.1	15	100	0	64	50	0	6	43	1.27
797620--797741	62	2.0	63	96	1	228	18	21	12	48	1.80
798126--798153	13	2.2	13	100	0	56	53	0	46	0	1.00
800597--800644	25	1.9	25	95	0	87	35	0	10	54	1.35
802246--802329	23	3.7	23	84	12	109	26	15	19	39	1.91
802225--802350	46	2.7	46	75	7	130	26	14	21	38	1.91
803724--803753	6	5.0	6	95	0	51	30	0	36	33	1.58
809838--809882	21	2.1	21	92	8	74	57	0	4	37	1.19
812031--812499	251	1.9	250	84	4	640	27	16	15	40	1.89
816437--816493	30	1.9	30	92	0	96	38	10	1	49	1.48
817674--817741	22	3.0	21	73	12	55	51	2	0	45	1.16
817726--817797	35	2.1	35	82	10	85	33	1	0	65	1.02
819443--819476	17	2.0	17	100	0	68	41	11	17	29	1.85
839100--839301	40	4.8	41	69	18	146	25	36	15	22	1.94
839097--839478	131	2.9	131	85	1	507	26	31	15	25	1.96
839619--840380	220	3.5	220	86	2	1025	33	25	14	26	1.94
842022--842070	5	9.8	5	88	0	71	14	4	2	79	0.97
842016--842072	20	2.8	20	89	2	78	14	7	3	75	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
842555--842709	54	2.9	54	92	0	247	34	17	18	30	1.94
843384--843427	20	2.1	21	83	4	54	45	29	2	22	1.65
849994--850039	21	2.2	21	100	0	92	26	21	15	36	1.93
851341--851408	31	2.2	31	92	2	111	33	11	26	27	1.91
852031--852091	31	2.0	31	96	0	113	27	29	9	32	1.89
855371--855430	20	2.9	21	90	7	95	30	25	26	18	1.98
855466--855510	22	2.0	22	91	4	72	28	33	26	11	1.91
855938--855983	20	2.3	20	100	0	92	47	0	30	21	1.51
856787--857102	103	3.1	103	94	0	553	25	14	23	36	1.93
857120--857164	23	2.0	23	86	0	63	20	26	26	26	1.99

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89