genome.fa.s190.2.7.7.80.10.50.1000.40.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  40  of  62  ( 7381 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)
9438135--9438394	66	3.8	65	76	17	208	46	4	7	42	1.51
9438193--9438344	75	2.1	72	92	3	250	45	3	7	44	1.47
9438346--9438370	13	1.9	13	100	0	50	60	8	0	32	1.26
9438193--9438380	36	5.3	34	78	17	165	47	3	6	42	1.47
9438301--9438479	70	2.6	68	81	12	190	46	5	4	43	1.47
9438301--9438480	69	2.6	68	79	12	190	46	5	4	43	1.47
9438408--9438504	38	2.6	36	79	9	97	43	4	5	47	1.44
9438464--9438509	25	2.0	24	87	12	69	39	0	8	52	1.33
9438518--9438583	28	2.4	25	74	16	60	22	3	3	71	1.14
9438542--9438589	17	2.9	17	78	12	55	22	2	0	75	0.91
9438800--9438829	16	1.9	15	93	6	51	20	40	26	13	1.89
9439930--9439995	34	1.9	34	87	6	98	9	12	1	77	1.06
9444774--9445858	84	13.1	84	77	5	963	31	24	18	25	1.97
9444774--9445872	165	6.6	164	80	5	1057	31	23	18	26	1.97
9444774--9445923	249	4.6	249	80	3	1272	31	24	18	25	1.97
9446498--9446538	2	20.5	2	100	0	82	51	0	0	48	1.00
9446522--9446973	37	12.6	36	75	15	318	47	3	6	43	1.45
9446563--9446973	73	5.8	73	76	18	368	46	3	6	44	1.45
9446748--9446807	28	2.0	31	84	9	81	46	1	6	45	1.39
9446711--9446973	106	2.5	108	75	14	259	46	3	5	44	1.42
9446777--9446865	43	2.1	41	83	8	108	48	4	5	41	1.47
9446819--9446972	34	4.5	36	72	20	109	45	3	5	44	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9446860--9446917	29	2.0	30	86	3	82	46	3	6	43	1.47
9446671--9446967	145	2.1	140	80	11	316	47	3	5	43	1.41
9450053--9450115	31	2.0	31	100	0	126	44	25	6	23	1.77
9450214--9450273	24	2.5	24	80	0	75	40	10	1	48	1.47
9454060--9454107	22	2.2	22	85	3	62	22	8	4	64	1.38
9464090--9464179	26	3.4	26	79	17	89	40	4	1	54	1.28
9464090--9464160	24	2.8	24	85	10	81	39	4	1	54	1.28
9464105--9464244	27	4.9	28	77	17	121	40	3	1	54	1.27
9465780--9465831	21	2.5	20	77	17	54	34	9	26	28	1.88
9472234--9472296	33	1.9	33	83	6	83	33	14	25	26	1.94
9475374--9475450	41	1.9	40	81	7	93	33	6	25	33	1.82
9476072--9476180	23	5.0	22	74	13	66	22	18	26	32	1.97
9476089--9476183	23	4.3	22	77	16	99	24	17	25	32	1.97
9487013--9487047	18	1.9	18	88	0	52	20	20	31	28	1.97
9489877--9489934	14	4.1	14	84	4	80	43	3	20	32	1.69
9489936--9489967	14	2.3	14	94	0	55	25	12	18	43	1.85
9490386--9490477	23	4.1	21	68	16	60	47	1	0	51	1.07
9490352--9490514	52	3.0	55	78	11	135	47	1	0	49	1.16
9490439--9490485	23	2.0	23	88	8	69	42	0	0	57	0.98
9490479--9490542	22	2.9	23	82	11	64	50	1	1	46	1.20
9490493--9490555	30	2.0	32	82	11	78	53	0	0	46	1.00
9490505--9490559	21	2.5	22	82	11	67	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9490757--9490846	42	2.1	42	87	4	128	50	17	14	17	1.79
9492139--9492274	21	6.2	23	81	13	130	21	17	27	33	1.96
9492138--9492271	44	3.0	43	80	11	157	20	17	26	34	1.96
9492700--9492739	21	1.9	21	85	10	55	32	0	12	55	1.38
9495697--9495753	21	2.7	21	73	10	53	31	14	22	31	1.93
9497177--9497332	50	3.1	50	68	21	135	39	8	1	51	1.40
9497167--9497353	101	1.8	103	90	4	308	38	8	1	52	1.38
9497167--9497395	101	2.3	100	84	6	284	38	7	2	50	1.45
9497389--9497483	26	3.6	27	77	17	92	51	0	4	44	1.21
9498057--9498100	22	2.0	22	86	0	61	15	18	2	63	1.41
9501579--9501653	18	3.9	18	75	13	78	22	20	30	26	1.98
9501573--9501628	18	2.7	22	78	21	84	21	21	26	30	1.98
9501573--9501653	40	2.0	40	90	0	126	24	19	28	27	1.99
9503611--9503700	6	15.0	6	83	0	63	18	33	10	37	1.85
9503610--9503696	12	7.5	12	78	7	81	17	33	11	37	1.85
9503614--9503699	21	4.0	21	76	8	82	17	33	10	38	1.84
9504528--9504594	15	4.5	15	88	0	80	10	64	14	10	1.50
9508818--9508856	2	19.5	2	100	0	78	48	0	0	51	1.00
9511939--9511981	22	2.0	22	85	0	59	37	23	2	37	1.68
9512391--9512423	3	11.0	3	100	0	66	66	0	33	0	0.92
9521024--9521276	68	3.8	66	80	11	279	43	8	5	41	1.60
9523051--9523111	21	2.9	21	95	0	104	32	19	18	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9527315--9527439	62	2.0	62	100	0	250	49	12	12	24	1.76
9527621--9527668	24	2.0	24	91	0	78	25	8	31	35	1.85
9536658--9536696	18	2.1	19	85	9	53	33	5	2	58	1.33
9536988--9537021	9	3.7	9	88	4	50	32	0	0	67	0.91
9537590--9537657	28	2.4	28	80	5	73	32	5	0	61	1.20
9539256--9539309	14	3.8	14	82	4	63	24	14	9	51	1.71
9542212--9542343	2	66.0	2	81	11	146	44	3	3	49	1.33
9544919--9545231	114	2.7	114	90	1	493	33	15	19	31	1.93
9547303--9547378	40	1.9	40	91	0	125	34	11	21	32	1.89
9547762--9547841	22	3.6	22	89	0	115	32	17	13	36	1.89
9548233--9549562	113	11.8	113	93	2	2128	39	15	17	27	1.90
9549502--9549602	39	2.6	39	95	3	177	50	8	22	17	1.74
9549389--9549713	152	2.2	150	87	6	462	40	12	20	25	1.88
9549276--9549839	263	2.1	270	83	8	706	40	13	19	25	1.89
9549542--9550434	113	7.7	113	82	7	732	39	14	19	26	1.90
9549543--9550434	235	3.8	232	79	10	929	39	14	19	27	1.90
9549163--9549950	387	2.1	375	86	5	1073	40	13	19	26	1.89
9548834--9550194	724	1.9	712	86	4	1966	39	14	18	27	1.90
9550119--9550434	123	2.6	123	96	0	587	40	15	20	24	1.91
9552947--9552991	22	2.0	22	100	0	90	68	4	8	17	1.32
9554449--9555257	105	7.7	106	92	0	1252	22	18	25	33	1.96
9556758--9556796	20	2.0	20	95	5	71	43	15	20	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9562636--9562778	71	2.0	72	98	1	279	18	24	23	33	1.97
9562751--9562839	39	2.3	39	100	0	178	12	29	29	29	1.93
9565444--9565477	10	3.4	10	87	0	50	73	0	5	20	1.04
9566992--9567042	22	2.3	23	80	10	61	70	3	5	19	1.24
9568344--9568561	115	1.9	116	82	6	273	37	7	8	47	1.62
9568344--9568577	116	2.0	115	81	5	267	38	6	7	46	1.59
9571970--9572114	69	2.1	70	97	2	283	31	22	16	30	1.96
9573879--9573922	23	1.9	23	95	0	79	15	15	18	50	1.79
9575623--9575677	22	2.5	22	83	11	69	27	14	29	29	1.95
9575547--9575765	95	2.3	97	81	6	234	29	14	26	29	1.95
9575720--9575761	22	1.9	22	90	0	66	33	11	26	28	1.92
9576266--9576505	45	5.3	45	85	5	297	40	8	20	30	1.82
9576278--9576522	135	1.8	134	84	7	334	41	8	19	31	1.80
9579905--9579939	18	1.9	18	94	0	61	28	34	17	20	1.95
9580524--9580568	19	2.4	19	100	0	90	26	24	22	26	2.00
9600766--9600809	21	2.1	21	87	4	63	15	20	0	63	1.31
9608192--9608222	16	1.9	16	93	0	53	48	3	6	41	1.45
9612600--9612672	19	3.5	20	78	10	76	31	15	23	30	1.95
9612716--9612757	22	1.9	22	100	0	84	30	14	28	26	1.95
9612713--9612767	22	2.7	20	86	10	83	30	14	29	25	1.95
9613219--9613385	45	3.7	45	85	1	217	40	10	19	30	1.84
9618868--9618902	2	17.5	2	93	0	52	51	5	0	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9619704--9619758	22	2.7	20	83	10	74	30	18	25	25	1.98
9620161--9620314	79	2.0	78	90	1	245	33	9	28	28	1.88
9620288--9620504	45	4.8	45	82	3	274	38	9	20	31	1.84
9620288--9620547	90	2.9	89	77	8	256	40	8	19	32	1.81
9621205--9621248	19	2.2	20	84	4	54	31	4	15	47	1.66
9627305--9627345	16	2.4	18	80	8	50	34	2	34	29	1.71
9635098--9635213	26	4.5	26	90	5	157	5	31	0	62	1.17
9635122--9635214	26	3.6	26	95	1	161	4	33	0	62	1.15
9636762--9636817	21	2.7	21	84	15	64	28	14	8	48	1.74
9651157--9651559	82	4.9	82	86	0	527	33	14	17	34	1.90

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