genome.fa.s7984.2.7.7.80.10.50.1000.50.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  50  of  65  ( 7696 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)
9796468--9796646	41	4.3	41	75	10	159	22	23	21	32	1.98
9796463--9796687	83	2.7	83	87	0	315	24	23	20	32	1.98
9797156--9797206	16	3.2	16	72	10	50	60	0	5	33	1.21
9797193--9797253	24	2.5	25	77	20	67	59	8	1	31	1.37
9812347--9812380	3	11.3	3	100	0	68	67	0	0	32	0.91
9813270--9813343	31	2.4	31	88	0	112	37	9	14	37	1.79
9813591--9813621	2	15.5	2	100	0	62	48	0	0	51	1.00
9814316--9814447	71	1.9	71	93	3	230	51	14	7	26	1.69
9816080--9816645	81	7.0	81	90	1	837	27	22	12	37	1.90
9816080--9816645	244	2.3	243	90	1	873	27	22	12	37	1.90
9816596--9816851	68	3.8	68	89	0	386	28	23	14	33	1.93
9817059--9817203	55	2.7	54	87	1	209	31	23	11	34	1.90
9817548--9817772	95	2.4	95	79	7	242	24	20	16	38	1.92
9818641--9818780	70	2.0	70	90	0	217	49	15	8	27	1.73
9819494--9819532	20	2.0	20	89	0	60	23	28	20	28	1.99
9828884--9828920	17	2.2	17	90	0	56	48	18	8	24	1.75
9830330--9830384	26	2.2	25	86	3	74	34	30	14	20	1.92
9831668--9831779	26	4.6	25	73	13	81	43	5	0	50	1.24
9831695--9831753	7	8.0	7	74	22	50	44	0	0	55	0.99
9831770--9831813	20	2.2	20	84	8	54	40	2	4	52	1.34
9832053--9832094	14	2.9	14	89	7	57	61	2	0	35	1.09
9832361--9832407	24	2.0	24	100	0	94	42	14	0	42	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9832512--9832581	20	3.6	19	80	5	77	38	21	7	32	1.81
9833911--9833956	19	2.4	19	85	7	58	32	10	6	50	1.63
9838114--9838187	31	2.4	31	86	0	103	40	10	12	36	1.78
9838447--9838475	2	14.5	2	100	0	58	48	0	0	51	1.00
9839165--9839304	70	2.0	70	90	0	217	48	15	8	27	1.73
9840016--9840060	20	2.2	20	92	0	72	28	26	15	28	1.96
9848015--9848088	31	2.4	31	83	0	94	39	10	13	36	1.80
9849055--9849194	70	2.0	70	91	0	226	49	15	8	27	1.73
9849907--9849951	20	2.2	20	88	0	63	28	28	15	26	1.96
9860343--9860386	20	2.2	20	100	0	88	31	29	4	34	1.78
9861371--9861429	22	2.8	22	82	10	79	28	18	27	25	1.98
9864057--9864177	21	5.5	22	80	14	103	30	16	25	27	1.97
9864076--9864182	21	4.8	23	80	13	109	29	16	23	29	1.96
9864054--9864182	44	2.9	43	79	14	131	30	16	25	27	1.97
9869934--9869992	22	2.9	20	85	10	75	23	18	32	25	1.97
9869936--9869992	19	2.7	22	84	10	75	24	19	31	24	1.98
9870626--9870680	26	2.2	25	86	3	74	34	30	14	20	1.92
9871957--9872015	7	8.0	7	74	22	50	44	0	0	55	0.99
9871954--9872015	24	2.4	26	81	10	74	45	0	0	54	0.99
9871930--9872041	26	4.6	24	74	15	79	43	4	0	50	1.28
9871928--9872063	72	1.9	72	83	6	177	44	3	2	50	1.32
9872741--9872810	20	3.5	20	84	1	88	37	22	10	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9874142--9874187	19	2.4	19	85	7	58	32	10	6	50	1.63
9875539--9875603	20	3.3	20	91	2	96	35	21	7	35	1.82
9882924--9883050	53	2.4	53	100	0	254	29	11	23	36	1.89
9884192--9884225	16	2.1	17	88	5	52	20	5	29	44	1.75
9885818--9885863	16	2.8	17	77	9	51	63	0	6	30	1.20
9885852--9885912	24	2.5	25	77	20	67	59	8	1	31	1.37
9886513--9886571	23	2.6	23	94	2	102	42	0	6	50	1.28
9887127--9887183	24	2.4	24	96	0	105	24	33	29	12	1.92
9893555--9893587	2	16.5	2	100	0	66	51	0	0	48	1.00
9903880--9904523	106	6.0	106	87	1	878	23	19	23	33	1.97
9905531--9905573	18	2.4	18	80	0	50	2	11	2	83	0.83
9917737--9917775	11	3.6	11	82	6	53	53	0	0	46	1.00
9917722--9917784	5	12.4	5	76	15	58	57	0	0	42	0.99
9917740--9917787	2	26.0	2	76	16	50	54	0	0	45	0.99
9920187--9920248	31	2.0	31	87	0	88	40	11	12	35	1.80
9921235--9921374	70	2.0	70	92	0	235	50	15	7	27	1.71
9922055--9922107	20	2.6	21	72	3	54	24	24	20	30	1.99
9923029--9923590	81	7.0	81	87	4	778	28	22	11	37	1.89
9923029--9923590	163	3.5	162	88	4	791	28	22	11	37	1.89
9923541--9923796	68	3.8	68	92	0	413	28	23	14	33	1.94
9924006--9924163	55	2.9	55	85	2	192	31	23	11	34	1.90
9924493--9924717	95	2.4	95	77	7	224	25	21	16	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9935944--9936015	31	2.3	31	85	0	99	38	11	13	36	1.81
9936981--9937120	70	2.0	70	88	0	208	50	14	8	26	1.71
9937830--9937874	20	2.2	20	88	0	63	28	24	17	28	1.97
9945801--9945874	31	2.4	31	86	0	103	37	10	14	36	1.82
9946841--9946973	70	1.9	70	93	0	230	48	15	8	27	1.74
9947685--9947729	20	2.2	20	92	0	72	28	26	15	28	1.96
9955606--9955679	31	2.4	31	86	0	103	37	10	14	36	1.82
9956636--9956765	67	2.0	67	89	7	203	50	13	7	28	1.70
9957455--9957523	20	3.4	20	74	6	68	30	27	14	27	1.95
9966394--9966430	17	2.2	17	90	0	56	48	18	8	24	1.75
9967832--9967886	26	2.2	25	90	3	83	34	29	14	21	1.93
9969182--9969240	7	8.0	7	74	22	50	44	0	0	55	0.99
9969257--9969300	20	2.2	20	84	8	54	40	2	4	52	1.34
9969480--9969521	17	2.5	17	80	7	50	52	2	0	45	1.13
9969536--9969577	14	2.9	14	85	3	57	57	2	0	40	1.12
9969766--9969805	20	2.0	20	90	9	64	30	17	22	30	1.97
9969848--9969916	20	3.5	19	80	5	75	37	21	8	31	1.84
9970908--9970980	24	3.0	24	88	4	67	10	15	24	49	1.76
9970918--9970973	14	4.3	14	82	17	75	8	14	25	51	1.70
9970919--9970993	24	3.1	23	90	3	96	12	12	21	54	1.69
9971721--9971779	10	5.7	10	73	15	57	10	11	20	57	1.63
9971727--9971783	16	3.7	16	88	4	82	10	10	19	59	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9972452--9972497	19	2.4	19	85	7	58	32	10	6	50	1.63
9973358--9973429	33	2.2	33	84	2	90	25	26	13	34	1.93
9973869--9973933	20	3.3	20	84	2	78	36	20	7	35	1.81
9976937--9976987	21	2.4	21	96	0	93	25	31	29	13	1.94
9978305--9978340	2	18.0	2	100	0	72	50	0	0	50	1.00
9981193--9981319	53	2.4	53	100	0	254	29	11	23	36	1.89
9982446--9982479	16	2.1	17	88	5	52	20	5	29	44	1.75
9983961--9983985	3	8.3	3	100	0	50	68	0	0	32	0.90
9985764--9985842	3	25.7	3	87	5	113	37	0	0	62	0.96
9985773--9985848	19	4.1	19	89	1	100	40	0	0	59	0.98
9990360--9990400	7	6.0	7	81	13	50	14	17	14	53	1.73
9992937--9993054	24	4.9	24	83	9	132	41	19	13	25	1.88
9995534--9995563	13	2.3	13	100	0	60	13	23	46	16	1.82
9997666--9997780	24	4.8	24	87	4	160	41	20	16	21	1.90
9997647--9997797	48	3.1	48	77	8	130	44	19	13	21	1.86
9997646--9997797	72	2.1	71	77	8	155	44	19	13	21	1.85
10000277--10000323	18	2.6	18	86	0	67	10	23	44	21	1.83
10002447--10002561	24	4.8	24	86	4	151	41	20	15	22	1.89
10002428--10002578	48	3.1	48	76	8	121	44	19	13	22	1.85
10005062--10005091	13	2.3	13	100	0	60	13	23	46	16	1.82
10006408--10006447	20	2.0	20	90	9	64	75	2	17	5	1.10
10006410--10006456	20	2.3	20	85	7	60	82	2	12	2	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10006410--10006454	9	4.8	9	81	10	54	82	2	13	2	0.86
10011500--10012087	73	8.0	73	95	0	1050	26	21	20	31	1.98
10011500--10012087	220	2.7	219	95	0	1050	26	21	20	31	1.98
10012238--10012310	3	23.7	3	86	10	103	36	0	0	63	0.95
10012238--10012310	22	3.4	21	87	10	103	36	0	0	63	0.95
10016292--10016683	38	10.6	36	84	10	413	45	3	7	43	1.49
10018747--10018865	33	3.5	33	93	6	186	44	8	4	42	1.54
10020870--10020936	33	2.0	34	91	8	111	44	8	4	41	1.56
10024116--10024190	37	2.1	34	82	7	87	41	6	4	48	1.48
10026180--10026338	33	4.7	33	90	7	257	43	7	4	44	1.52

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