genome.fa.s9639.2.7.7.80.10.50.1000.59.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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  59  of  62  ( 7398 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)
14310497--14310581	20	4.4	19	73	17	59	17	7	3	71	1.23
14311281--14311797	237	2.2	237	88	3	738	32	14	17	35	1.90
14311816--14311936	42	2.9	42	75	3	120	26	22	21	29	1.99
14311559--14312255	261	2.7	257	84	2	865	32	16	16	34	1.91
14312272--14312332	27	2.1	29	85	14	81	75	0	11	13	1.05
14312481--14313444	45	21.7	45	80	4	915	22	15	20	41	1.90
14312481--14313434	178	5.4	177	85	4	1154	22	15	20	41	1.90
14313441--14313562	51	2.4	51	88	0	172	25	21	16	36	1.94
14314202--14314773	134	4.3	134	81	6	579	30	18	18	31	1.95
14315602--14315654	21	2.6	20	82	11	63	39	16	15	28	1.89
14315617--14315662	21	2.2	21	100	0	92	45	13	10	30	1.77
14315704--14315746	22	2.0	22	90	0	68	34	13	32	18	1.90
14316069--14316571	54	9.4	54	87	3	611	33	20	18	27	1.96
14316795--14317173	201	1.9	200	94	0	677	32	12	16	39	1.85
14322195--14322866	54	12.4	54	89	0	966	34	20	17	26	1.95
14327633--14327691	11	5.2	11	75	15	57	22	22	23	32	1.98
14327642--14327685	12	3.8	12	78	6	54	20	20	25	34	1.97
14327633--14327691	23	2.6	23	94	0	100	22	22	23	32	1.98
14334538--14334574	13	2.8	13	95	0	65	13	29	29	27	1.94
14337989--14338088	30	3.3	30	71	8	78	46	5	5	44	1.47
14338945--14338992	21	2.3	20	92	3	78	45	18	16	18	1.85
14338945--14339010	20	3.2	20	89	2	87	43	18	19	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14338962--14339028	20	3.3	20	85	6	82	43	19	19	17	1.89
14339384--14339450	20	3.3	20	93	2	107	20	17	14	46	1.84
14339425--14339513	40	2.2	40	79	2	97	17	15	23	42	1.88
14339445--14339510	20	3.3	20	77	8	71	16	15	28	39	1.89
14339787--14339932	61	2.4	61	80	4	161	23	18	13	44	1.85
14339787--14339932	20	7.2	21	82	4	158	23	18	13	44	1.85
14339787--14339936	41	3.7	42	81	5	175	24	18	13	44	1.85
14339887--14339973	20	4.3	21	76	14	76	21	14	22	40	1.91
14340017--14340070	20	2.7	21	77	8	67	25	14	31	27	1.95
14340905--14340965	23	2.7	23	84	2	88	36	26	11	26	1.90
14341072--14341123	20	2.5	21	90	3	79	75	11	1	11	1.14
14343736--14343835	24	4.2	24	85	2	94	9	6	40	45	1.60
14343759--14343881	6	20.3	6	78	5	122	5	4	45	44	1.46
14344547--14344683	61	2.2	61	93	0	229	35	8	8	48	1.62
14344742--14344828	33	2.6	33	89	3	131	42	6	9	41	1.63
14344981--14345014	15	2.2	16	89	5	52	52	0	5	41	1.25
14345071--14345112	9	4.7	9	77	11	50	40	2	7	50	1.43
14345017--14345261	27	9.6	25	75	13	153	44	4	6	43	1.52
14345144--14345381	2	113.0	2	66	23	91	47	4	5	42	1.47
14345191--14345248	7	8.6	7	79	11	50	46	3	6	43	1.47
14345547--14345588	20	2.1	20	95	0	75	35	2	9	52	1.47
14345546--14345588	9	4.6	9	83	11	59	34	2	9	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14345590--14345651	29	2.1	29	88	5	90	41	3	12	41	1.59
14345779--14346045	11	25.5	11	67	14	93	43	3	5	47	1.46
14345757--14345839	33	2.4	34	78	9	98	44	6	3	45	1.45
14345779--14346185	20	20.7	19	68	15	140	45	3	5	45	1.44
14345984--14346196	2	106.5	2	66	18	79	48	2	4	44	1.36
14346017--14346195	9	18.9	9	65	21	64	49	2	3	43	1.35
14345984--14346169	11	16.8	11	69	14	89	49	2	4	43	1.36
14346008--14346196	101	1.8	105	90	4	314	48	2	4	44	1.36
14348228--14348292	21	3.2	21	67	20	57	49	7	9	33	1.63
14348216--14348310	39	2.4	39	91	3	147	47	9	8	34	1.66
14348275--14348312	17	2.2	18	85	4	51	52	10	2	34	1.50
14348250--14348317	18	3.6	18	70	18	57	47	11	7	33	1.68
14348325--14348469	72	2.0	72	93	0	245	25	16	27	30	1.97
14349321--14349377	28	2.0	28	89	0	87	31	22	17	28	1.97
14352736--14352783	20	2.4	20	89	6	71	25	37	20	16	1.93
14358611--14358653	22	2.0	22	90	0	68	18	34	16	30	1.93
14359544--14359593	19	2.6	19	84	9	66	24	32	20	24	1.98
14359581--14359723	73	2.0	73	90	0	223	31	16	15	37	1.90
14359702--14359751	21	2.3	21	83	10	57	24	18	24	34	1.96
14360050--14360263	70	3.0	70	86	6	265	30	1	12	56	1.45
14360181--14360222	14	2.9	15	79	10	52	35	0	4	59	1.19
14366518--14366625	5	20.8	5	70	11	74	22	3	2	71	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14368490--14368684	70	2.8	70	87	6	265	28	1	12	56	1.45
14369272--14369301	12	2.5	12	94	0	51	16	0	3	80	0.85
14369814--14369861	19	2.5	19	83	10	62	22	31	20	25	1.98
14369851--14369992	73	1.9	73	87	2	205	34	14	14	35	1.88
14369994--14370044	22	2.3	22	90	9	86	23	17	29	29	1.97
14379450--14379480	11	2.8	11	95	0	53	22	0	3	74	0.96
14380754--14380784	9	3.6	9	91	8	55	41	9	0	48	1.36
14380779--14380854	3	25.3	3	81	5	91	36	1	1	60	1.13
14381880--14381920	15	2.8	15	85	3	57	29	2	7	60	1.36
14382095--14382159	30	2.2	29	80	17	73	24	7	3	64	1.34
14382346--14382649	145	2.1	144	81	7	346	40	5	5	47	1.52
14384676--14384719	21	2.1	21	87	8	63	18	18	4	59	1.55
14387146--14387280	72	1.9	72	84	3	182	26	20	19	33	1.97
14389007--14389080	36	2.0	37	97	2	141	21	17	31	29	1.96
14390843--14390896	22	2.5	22	87	0	81	35	12	12	38	1.82
14392220--14392273	22	2.5	22	87	0	81	35	12	12	38	1.82
14392933--14393964	45	22.9	45	90	0	1553	25	22	17	34	1.96
14394186--14394268	3	27.3	3	73	4	60	36	1	2	60	1.18
14394783--14394824	14	2.8	15	85	10	50	64	33	2	0	1.07
14395317--14395357	15	2.8	15	85	3	57	29	2	7	60	1.36
14399795--14399903	26	4.2	26	91	2	166	27	25	11	34	1.91
14399795--14399903	51	2.1	52	89	1	166	27	25	11	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14406179--14406253	26	3.0	26	80	11	93	26	26	13	33	1.93
14406185--14406269	25	3.4	25	84	11	95	24	25	12	36	1.92
14408932--14408982	16	3.2	16	88	0	75	60	21	7	9	1.53
14409888--14409943	24	2.3	24	87	0	76	62	16	7	14	1.52
14410407--14410454	23	2.1	23	88	0	69	35	12	18	33	1.89
14410930--14411002	23	3.2	23	88	0	101	38	20	4	36	1.72
14410939--14411003	23	2.8	23	90	0	103	35	21	3	40	1.69
14411418--14411490	23	3.2	23	92	0	119	38	21	5	34	1.77
14411902--14411974	23	3.2	23	92	0	119	38	21	5	34	1.77
14410524--14412708	488	4.5	490	97	1	4115	39	10	7	41	1.69
14412391--14412463	23	3.2	23	92	0	119	38	21	5	34	1.77
14412859--14412903	19	2.4	19	96	0	81	55	8	2	33	1.43
14414698--14414763	33	2.0	33	90	0	105	22	48	0	28	1.51
14414797--14414861	21	3.1	21	88	0	94	18	30	9	41	1.82
14417055--14417097	20	2.3	18	85	14	61	20	16	11	51	1.75
14417060--14417106	20	2.4	19	82	10	67	19	17	10	53	1.72
14417241--14417287	20	2.3	20	86	10	69	19	17	8	55	1.67
14417027--14417493	181	2.6	177	88	2	659	27	16	13	42	1.86
14420277--14420321	20	2.3	19	84	3	63	33	24	2	40	1.68
14421844--14421945	45	2.3	44	83	10	118	32	18	17	31	1.94
14427578--14427622	15	3.1	15	84	12	51	55	2	0	42	1.12
14429259--14429321	29	2.3	27	81	10	65	46	14	15	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14431519--14431560	5	8.2	5	82	12	50	73	2	4	19	1.12
14431684--14431718	18	1.9	18	88	0	52	31	11	0	57	1.34
14431829--14431886	2	29.0	2	96	0	107	50	1	0	48	1.11
14432650--14432892	44	5.5	45	73	10	144	35	18	19	25	1.95
14432557--14432841	90	3.2	90	74	7	267	34	20	21	23	1.97
14434090--14434139	15	2.9	18	77	22	63	0	18	0	82	0.68
14434089--14434142	20	2.8	20	83	16	69	0	16	0	83	0.65
14436144--14436186	2	22.5	2	90	9	72	53	0	0	46	1.00
14447714--14447871	54	2.9	54	87	1	210	38	17	13	30	1.88
14457080--14457410	2	169.0	2	65	20	112	47	3	4	44	1.40

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