genome.fa.s7999.2.7.7.80.10.50.1000.25.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  25  of  50  ( 5918 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)
6201978--6202031	22	2.4	22	81	3	63	37	16	12	33	1.87
6203094--6203159	31	2.1	31	82	0	78	33	18	24	24	1.97
6204593--6204699	51	2.3	50	82	12	129	54	13	2	29	1.53
6204674--6204719	22	2.0	22	83	12	56	52	13	2	32	1.52
6205597--6205657	30	2.0	30	93	0	104	27	18	18	36	1.94
6208683--6208756	13	5.7	13	91	0	112	28	20	17	33	1.95
6208747--6208902	85	1.8	85	90	2	251	31	20	15	32	1.94
6215009--6215058	25	2.1	23	81	7	55	24	6	10	60	1.51
6217157--6217420	43	6.2	42	87	4	316	25	21	23	28	1.99
6217194--6217461	129	2.1	128	82	6	319	26	21	23	28	1.99
6217573--6217631	21	2.8	21	84	0	73	55	20	5	18	1.61
6221935--6222338	83	4.9	82	81	6	415	33	18	20	27	1.96
6221935--6222338	41	9.8	42	82	6	418	33	18	20	27	1.96
6221935--6222316	124	3.1	124	87	2	527	32	18	20	28	1.96
6225911--6225950	19	2.2	19	95	4	73	30	5	10	55	1.54
6227326--6227357	15	2.1	15	94	0	55	43	9	9	37	1.69
6227836--6227998	87	1.9	87	94	0	290	41	10	14	33	1.79
6228134--6229337	182	6.6	182	94	1	2085	27	17	13	42	1.86
6229364--6229408	22	2.1	22	91	4	74	40	13	4	42	1.64
6232045--6232384	184	1.8	184	95	0	617	33	15	12	37	1.86
6234361--6234409	19	2.6	19	93	6	82	57	10	2	30	1.43
6235975--6236047	33	2.2	33	95	0	128	4	41	0	54	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6236235--6236300	33	2.0	33	91	5	107	22	45	0	31	1.53
6236337--6236377	21	2.0	21	90	0	64	19	26	12	41	1.87
6238633--6238679	20	2.4	19	79	10	58	21	17	8	53	1.70
6238609--6239073	182	2.6	180	87	2	644	26	16	12	43	1.84
6239602--6239650	24	2.0	24	96	0	89	34	4	22	38	1.73
6245907--6245952	20	2.3	20	96	0	83	23	13	15	47	1.80
6249316--6249365	14	3.6	13	86	10	64	26	22	22	30	1.99
6255440--6255496	20	2.8	20	97	0	105	35	19	24	21	1.96
6255486--6255556	23	3.2	23	70	8	65	28	21	22	28	1.99
6255485--6255584	44	2.3	44	89	0	146	28	19	21	32	1.97
6261297--6261517	65	3.4	65	90	4	315	33	17	20	29	1.95
6263220--6263272	26	2.0	27	82	10	65	39	3	9	47	1.54
6264074--6264133	23	2.6	23	81	0	66	10	35	25	30	1.88
6264116--6264162	14	3.4	14	90	0	76	6	27	40	25	1.80
6267397--6267449	15	3.5	15	79	7	54	39	0	1	58	1.09
6271455--6271607	76	2.0	76	98	0	297	35	4	12	47	1.62
6271752--6271836	33	2.6	34	90	7	140	31	28	12	27	1.93
6277758--6277813	8	6.9	9	79	20	54	55	0	0	44	0.99
6277749--6277789	14	3.0	13	86	10	55	60	0	0	39	0.96
6277730--6277803	24	3.0	24	78	9	60	62	0	2	35	1.10
6277782--6277812	2	15.5	2	100	0	62	51	0	0	48	1.00
6278151--6278237	33	2.6	34	83	8	108	26	10	21	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6278167--6278237	33	2.2	33	92	0	115	25	7	22	45	1.77
6278284--6278331	14	3.2	14	76	23	53	72	0	0	27	0.84
6278703--6279788	84	13.1	83	79	5	982	25	19	24	30	1.98
6278698--6279798	249	4.4	247	84	5	1152	25	19	24	30	1.98
6279907--6280888	110	9.0	110	90	0	1481	24	18	22	34	1.96
6285097--6285132	8	4.4	8	86	6	54	72	0	0	27	0.85
6287542--6287609	31	2.2	31	86	5	93	20	16	27	35	1.94
6293721--6293776	23	2.2	26	79	20	66	71	8	10	8	1.31
6293823--6293851	13	2.1	14	93	6	51	79	0	6	13	0.93
6293962--6293998	2	18.5	2	88	0	56	48	2	2	45	1.30
6294135--6294201	2	34.0	2	96	3	127	50	0	0	49	1.00
6296003--6296801	84	9.5	84	82	3	880	24	18	25	31	1.98
6297978--6298223	96	2.6	96	85	5	311	32	19	17	30	1.95
6302643--6302694	20	2.5	20	81	9	61	71	1	11	15	1.23
6302767--6302799	2	16.5	2	100	0	66	51	0	0	48	1.00
6302786--6302821	19	1.9	18	88	5	54	55	2	2	38	1.29
6302845--6302892	18	2.6	19	77	12	55	77	4	10	8	1.12
6302935--6303015	2	40.5	2	100	0	162	50	0	0	49	1.00
6303003--6303073	35	2.0	35	83	5	90	57	1	9	30	1.40
6304216--6304265	23	2.2	23	82	7	57	50	0	12	38	1.40
6306947--6307034	25	3.5	25	100	0	176	18	22	20	38	1.93
6319796--6319823	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6321554--6321605	24	2.2	24	82	0	59	11	15	25	48	1.78
6321575--6321605	14	2.2	14	94	0	53	9	12	22	54	1.67
6321564--6321625	24	2.6	24	89	5	90	12	12	19	54	1.70
6322353--6322426	10	7.6	10	69	22	59	9	12	21	56	1.63
6322359--6322423	16	4.1	16	95	0	121	7	12	23	56	1.61
6325731--6325769	20	2.0	20	89	0	60	35	17	17	28	1.94
6326355--6326388	16	2.1	16	88	0	50	50	11	14	23	1.76
6333337--6333412	2	38.0	2	100	0	152	50	0	0	50	1.00
6334225--6334282	20	2.7	20	86	10	71	25	20	20	32	1.97
6334270--6334410	64	2.2	63	82	7	169	25	24	18	31	1.97
6335217--6335262	2	22.5	2	95	4	83	47	2	0	50	1.13
6338239--6338302	20	3.0	22	84	15	89	26	21	18	32	1.97
6341053--6341087	17	2.1	17	94	0	61	14	25	42	17	1.86
6341010--6341060	7	7.4	7	73	4	50	25	23	31	19	1.98
6347601--6347655	5	10.8	5	81	11	67	5	21	52	20	1.66
6347588--6347636	22	2.2	23	96	3	91	8	24	48	18	1.75
6347652--6347714	9	6.8	9	75	7	63	26	30	26	15	1.96
6347606--6347664	19	3.2	19	85	4	86	8	23	49	18	1.75
6347654--6347714	19	3.3	19	88	2	97	27	31	24	16	1.96
6349201--6349230	13	2.2	14	94	5	53	23	13	10	53	1.69
6350295--6350329	18	1.9	18	88	0	52	40	11	17	31	1.85
6354109--6354147	21	1.9	20	89	5	60	58	7	30	2	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6355038--6355086	20	2.4	21	83	10	66	51	4	28	16	1.63
6355289--6355344	2	28.0	2	100	0	112	50	0	0	50	1.00
6355978--6356026	17	2.8	18	81	9	57	30	0	4	65	1.11
6356016--6356106	26	3.4	28	84	14	113	41	0	2	56	1.12
6356041--6356115	26	2.8	26	88	8	80	40	1	4	54	1.27
6356117--6356163	18	2.5	19	76	16	53	36	0	0	63	0.94
6356364--6356404	20	2.1	20	86	4	57	56	2	0	41	1.13
6356627--6356686	31	1.9	31	89	0	93	43	8	6	41	1.61
6357197--6357244	23	2.1	23	88	0	69	35	12	18	33	1.89
6357721--6357793	23	3.2	23	86	0	101	38	19	5	36	1.75
6358151--6358223	23	3.2	23	80	0	92	41	17	5	35	1.73
6358586--6358648	23	2.7	23	92	0	99	39	19	3	38	1.67
6357555--6359281	430	4.0	431	96	1	3152	39	12	7	40	1.71
6359016--6359078	23	2.7	23	92	0	99	38	20	4	36	1.74
6357567--6359260	855	2.0	855	97	0	3190	39	12	7	40	1.72
6362436--6362498	23	2.7	23	92	0	99	38	20	4	36	1.74
6362859--6362892	16	2.1	16	88	0	50	26	17	8	47	1.77
6364085--6364156	3	24.0	3	76	0	72	23	33	6	36	1.82
6364092--6364173	36	2.3	36	91	0	128	20	32	8	37	1.83
6364086--6364173	12	7.3	12	85	0	95	21	32	7	37	1.83
6364110--6364173	18	3.6	18	75	8	67	18	32	9	39	1.83
6366731--6366796	33	2.0	33	87	0	96	22	46	0	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6366830--6366871	19	2.2	19	91	0	66	16	30	11	40	1.85
6368899--6368952	24	2.2	24	83	6	65	25	7	12	53	1.65
6369278--6369324	20	2.4	19	79	10	58	21	17	8	53	1.70
6369064--6369537	181	2.6	182	89	2	693	26	16	13	42	1.86
6372829--6373319	244	2.0	247	89	1	763	42	18	14	24	1.87
6386537--6386581	21	2.1	21	83	0	54	28	33	24	13	1.93
6391043--6391072	15	2.0	15	100	0	60	46	6	46	0	1.29
6391804--6391867	32	2.0	32	100	0	128	28	3	28	40	1.71
6394761--6394785	6	4.2	6	100	0	50	52	16	16	16	1.76
6398532--6398615	3	27.7	3	97	2	159	66	0	0	33	0.92

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