genome.fa.s7999.2.7.7.80.10.50.1000.43.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  43  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)
10160422--10160647	103	2.2	103	92	1	373	38	23	11	26	1.89
10161107--10161227	64	1.9	64	89	6	192	27	21	16	34	1.95
10161107--10161267	64	2.5	63	83	8	182	27	21	17	33	1.96
10162909--10162944	6	6.0	6	90	0	54	19	0	44	36	1.51
10163888--10163927	20	2.0	20	85	0	53	47	5	10	37	1.59
10163909--10163942	13	2.5	13	90	4	50	47	8	2	41	1.50
10163860--10163983	55	2.2	57	84	5	155	44	8	7	39	1.63
10163860--10163995	57	2.4	55	82	4	157	44	8	8	38	1.65
10164021--10164064	14	3.1	14	76	0	52	40	9	2	47	1.48
10164033--10164078	21	2.2	21	88	0	65	41	8	4	45	1.55
10164089--10164285	15	12.9	15	64	26	67	45	2	3	49	1.31
10164178--10164270	6	14.3	6	72	23	57	47	0	2	50	1.13
10164192--10164284	12	7.2	12	75	23	66	48	0	1	50	1.07
10164164--10164284	52	2.3	53	80	12	135	47	0	1	49	1.17
10164191--10164272	28	2.9	27	89	10	121	46	0	1	52	1.08
10164498--10164542	18	2.4	19	81	3	56	13	35	4	46	1.63
10164993--10165046	12	4.3	13	81	9	58	46	33	1	18	1.60
10165002--10165045	6	7.2	6	79	5	52	47	36	0	15	1.46
10165043--10165119	6	13.5	6	83	5	54	38	36	14	10	1.80
10165043--10165121	12	6.9	12	79	5	67	37	37	13	10	1.79
10165140--10165175	18	1.9	18	88	5	54	50	30	5	13	1.65
10168424--10168463	11	3.5	11	86	6	62	40	10	5	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10168722--10168768	14	3.7	14	71	26	50	51	4	0	44	1.21
10168720--10168769	23	2.1	24	96	3	93	48	4	0	48	1.20
10168981--10169023	16	2.7	16	85	7	52	44	9	18	27	1.80
10169062--10169119	16	3.6	16	76	0	53	41	12	20	25	1.87
10170029--10170122	28	3.2	29	83	7	127	40	10	13	35	1.80
10169995--10170161	59	2.8	59	74	16	164	40	10	9	38	1.73
10170231--10170329	28	3.5	28	71	13	85	43	10	6	40	1.63
10170259--10170359	30	3.5	28	75	14	82	42	9	6	40	1.65
10170223--10170359	57	2.4	58	80	9	172	43	10	5	40	1.63
10170574--10170621	23	2.1	23	92	0	78	35	10	18	35	1.85
10171097--10171169	23	3.2	22	86	9	101	38	21	4	35	1.73
10171106--10171170	23	2.8	23	95	0	112	35	23	3	38	1.70
10170695--10172478	490	3.7	488	94	2	3154	39	11	7	41	1.69
10171587--10171659	23	3.2	23	94	0	128	38	20	5	35	1.76
10172068--10172137	21	3.3	21	88	4	104	38	22	5	32	1.78
10175628--10175666	17	2.4	17	95	4	71	51	5	0	43	1.24
10190350--10190429	31	2.6	30	84	7	99	20	11	10	58	1.60
10199665--10199762	45	2.2	45	83	3	117	46	12	11	29	1.76
10201891--10201917	6	4.5	6	100	0	54	66	33	0	0	0.92
10203192--10203286	44	2.2	44	98	0	181	37	7	25	29	1.83
10205538--10205630	2	46.5	2	100	0	186	50	0	0	49	1.00
10206088--10206122	18	1.9	18	94	0	61	51	37	0	11	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10206845--10206901	29	2.0	29	86	6	80	42	1	1	54	1.21
10207006--10207035	14	2.1	14	93	0	51	40	0	0	60	0.97
10207017--10207065	17	2.8	17	84	6	62	46	2	2	48	1.25
10207009--10207065	25	2.3	26	79	14	66	45	1	1	50	1.22
10207045--10207128	22	3.9	22	69	17	61	50	2	2	45	1.27
10208647--10208722	24	3.2	24	86	3	82	44	19	13	22	1.85
10208664--10208779	24	4.8	24	89	4	171	39	18	16	25	1.91
10209890--10209925	18	2.0	18	88	0	54	30	16	0	52	1.44
10217565--10217640	36	2.1	36	85	7	100	47	1	3	47	1.29
10221848--10221881	12	2.8	12	86	0	50	76	0	0	23	0.79
10222587--10222645	28	2.1	28	83	3	73	42	0	6	50	1.28
10223472--10223592	52	2.3	51	79	6	118	42	0	4	52	1.26
10227854--10227880	10	2.7	10	100	0	54	44	11	11	33	1.75
10231417--10231501	31	2.7	31	83	0	107	32	8	21	37	1.83
10242300--10242381	23	3.9	21	78	7	67	25	32	26	14	1.95
10244016--10244041	12	2.2	12	100	0	52	26	34	38	0	1.57
10250235--10250330	21	4.5	21	73	2	66	31	14	13	40	1.85
10255735--10256013	131	2.1	131	85	1	362	41	15	8	35	1.77
10256440--10256483	23	2.0	23	86	4	63	52	2	0	45	1.13
10258768--10258941	55	3.2	55	80	9	182	28	25	17	28	1.98
10258941--10259044	37	2.8	37	84	5	122	25	18	19	37	1.94
10260229--10260332	17	6.2	17	77	13	94	8	13	0	77	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10260239--10260343	23	4.6	21	74	18	79	9	14	0	76	1.02
10260239--10260343	10	10.3	10	68	21	58	9	14	0	76	1.02
10260234--10260336	41	2.5	40	81	15	115	8	14	0	76	1.01
10273728--10274077	133	2.6	133	80	6	384	30	13	21	34	1.92
10275323--10275409	15	5.8	14	73	16	68	8	12	1	78	1.02
10275326--10275387	33	1.9	32	84	12	83	6	11	1	80	0.96
10275343--10275401	28	2.1	27	84	9	75	6	13	0	79	0.92
10281277--10281322	21	2.2	21	92	0	74	15	28	17	39	1.90
10286556--10286607	18	2.9	18	94	0	86	26	30	21	21	1.98
10289135--10289183	21	2.3	21	92	0	89	0	22	8	69	1.14
10289647--10289744	3	32.7	3	93	0	160	62	0	3	34	1.11
10290063--10290313	116	2.2	113	85	6	346	29	19	13	36	1.91
10290212--10290406	93	2.1	94	81	6	225	31	18	14	34	1.92
10290107--10290717	209	2.8	208	87	7	732	30	19	13	36	1.90
10290308--10290725	113	3.7	113	84	4	588	30	19	12	37	1.89
10291363--10291654	83	3.5	83	95	1	532	36	22	14	26	1.92
10292427--10292468	19	2.2	20	91	4	68	52	11	4	30	1.59
10303152--10303204	18	2.9	17	76	15	52	73	1	0	24	0.93
10304916--10304960	19	2.4	19	96	0	81	0	22	6	71	1.09
10305428--10305528	3	33.7	3	91	0	166	62	0	1	35	1.07
10308235--10308274	17	2.3	18	87	12	57	30	12	0	57	1.36
10308270--10308312	18	2.4	18	77	14	52	25	11	6	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10310702--10310743	20	2.1	20	86	0	57	33	11	19	35	1.88
10310702--10310744	21	2.1	20	82	4	50	34	11	18	34	1.87
10315315--10315946	314	2.0	314	99	0	1246	36	22	5	36	1.76
10316868--10316914	4	11.8	4	100	0	94	74	0	0	25	0.82
10348556--10348586	2	15.5	2	100	0	62	51	0	0	48	1.00
10348755--10348803	13	3.8	13	80	0	62	34	20	18	26	1.95
10348749--10348803	26	2.1	26	82	0	65	38	18	18	25	1.93
10351657--10351707	21	2.5	21	87	3	68	33	19	21	25	1.97
10351714--10351770	19	2.7	22	78	15	75	31	5	28	35	1.79
10351716--10351805	19	4.4	19	74	16	72	36	4	27	31	1.77
10352037--10352067	15	2.0	16	93	6	55	6	19	51	22	1.69
10357641--10357672	13	2.3	15	89	10	50	59	6	3	31	1.38
10370654--10371195	55	9.9	55	87	1	741	28	19	17	35	1.94
10370631--10371195	219	2.6	219	87	1	792	28	18	17	35	1.94
10374940--10374991	21	2.5	21	90	0	77	5	26	5	61	1.42
10376777--10376813	19	1.9	19	88	0	56	64	2	0	32	1.07
10377933--10377964	14	2.4	13	94	5	55	0	18	0	81	0.70
10378375--10378428	3	17.7	3	88	3	81	64	0	1	33	1.04
10378583--10379518	76	12.1	76	92	5	1552	35	21	20	22	1.96
10379034--10379518	227	2.1	228	96	0	918	36	21	20	21	1.95
10380187--10380241	22	2.5	23	85	8	78	38	14	12	34	1.84
10382499--10382689	93	2.1	93	89	4	287	36	21	13	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10384996--10385060	23	2.8	23	73	19	62	3	16	1	78	0.96
10385008--10385072	16	4.1	16	78	5	53	3	15	1	80	0.92
10389727--10389801	24	3.1	24	77	11	73	58	1	2	37	1.20
10390452--10390488	19	1.9	19	88	0	56	64	2	0	32	1.07
10391260--10391304	20	2.2	20	100	0	90	8	44	37	8	1.67
10391629--10391658	11	2.6	11	94	5	51	0	16	0	83	0.65
10392052--10392076	2	12.5	2	100	0	50	48	0	0	52	1.00
10392082--10392126	3	14.7	3	81	4	54	66	0	2	31	1.04
10392082--10392139	15	3.9	15	86	4	64	67	0	5	27	1.12
10394245--10394420	24	7.3	24	99	0	343	54	4	3	37	1.38

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