genome.fa.s190.2.7.7.80.10.50.1000.43.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: 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  43  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)
10089647--10089704	20	2.9	20	97	0	107	15	22	24	37	1.93
10090762--10090815	24	2.2	24	90	0	81	24	16	20	38	1.92
10090990--10091014	12	2.1	12	100	0	50	72	0	28	0	0.86
10092679--10092756	33	2.4	33	93	2	131	42	17	25	14	1.87
10092679--10092736	19	3.4	19	68	24	56	44	17	22	15	1.86
10092781--10092818	19	2.0	19	94	0	67	13	21	18	47	1.82
10092783--10092824	19	2.2	19	86	0	57	14	19	16	50	1.79
10092934--10092970	14	2.6	14	91	0	65	45	24	0	29	1.53
10094303--10094369	21	3.2	21	68	4	55	19	20	35	23	1.95
10094303--10094425	42	2.9	41	79	7	113	22	18	36	21	1.95
10094641--10094827	91	2.0	91	88	6	279	48	17	11	22	1.79
10094994--10095187	63	3.1	62	98	1	300	23	36	18	21	1.95
10096642--10096695	20	2.8	20	85	2	65	44	20	20	14	1.86
10096665--10096727	33	1.9	33	93	0	108	44	22	22	11	1.84
10096640--10096732	19	5.1	19	75	15	88	45	19	22	12	1.84
10096728--10096794	19	3.5	18	78	11	71	8	16	25	49	1.74
10097305--10097354	20	2.5	20	90	0	73	28	20	26	26	1.99
10097366--10097419	20	2.7	20	94	0	90	25	18	25	29	1.98
10097490--10097530	21	2.0	21	85	0	55	34	31	17	17	1.93
10097902--10098149	42	5.9	42	83	2	273	19	20	17	41	1.90
10097902--10098149	85	2.9	82	83	5	280	19	20	17	41	1.90
10101533--10101913	41	9.2	41	84	2	474	35	19	19	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10101522--10101911	168	2.3	167	84	3	500	36	19	18	25	1.95
10110239--10110280	17	2.4	18	88	4	59	23	4	0	71	1.05
10110306--10110351	19	2.3	19	85	11	56	21	8	0	69	1.15
10110324--10110363	19	2.1	19	90	0	62	20	7	0	72	1.08
10113495--10113530	3	12.0	3	100	0	72	66	0	0	33	0.92
10113636--10113732	30	3.2	31	88	7	112	42	11	17	28	1.84
10113655--10113732	30	2.6	30	93	4	131	42	11	17	28	1.84
10116727--10116777	3	17.3	3	75	4	50	25	3	3	66	1.26
10121347--10121387	20	2.0	20	95	0	73	26	17	14	41	1.88
10122855--10122911	23	2.4	23	77	8	62	36	10	5	47	1.61
10123180--10123411	4	58.0	4	95	0	374	50	45	0	4	1.21
10123349--10123442	4	24.0	4	84	4	129	50	30	0	19	1.48
10123189--10123441	12	21.2	12	96	1	249	50	43	0	6	1.28
10123777--10123881	35	3.0	35	77	2	111	34	16	9	40	1.81
10124422--10124490	29	2.4	28	86	11	88	33	8	17	40	1.80
10124491--10124520	15	2.0	15	93	0	51	33	16	13	36	1.88
10124441--10124567	67	1.9	66	88	7	195	29	13	14	42	1.83
10124643--10124773	65	2.0	65	80	5	149	29	12	14	42	1.83
10124888--10125129	43	5.7	43	73	13	173	24	33	18	23	1.97
10124895--10125161	46	6.2	46	70	14	151	25	32	16	25	1.96
10124915--10125341	129	3.3	127	82	6	509	25	29	17	27	1.98
10125107--10125262	82	1.9	84	85	4	217	25	26	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10125551--10125598	3	16.3	3	78	4	53	25	2	4	68	1.18
10133736--10133795	21	2.9	21	97	0	111	40	21	18	20	1.92
10136385--10136439	5	10.2	5	86	13	74	78	0	21	0	0.76
10138662--10138749	42	2.1	41	80	2	104	26	26	21	26	2.00
10138853--10138954	42	2.5	41	80	6	116	26	24	21	27	1.99
10138853--10138966	42	2.7	41	76	9	115	27	24	20	28	1.99
10139072--10139168	42	2.3	42	82	1	115	23	26	22	26	2.00
10138662--10139914	214	5.9	214	94	1	2051	32	16	20	30	1.95
10139281--10139382	42	2.5	41	79	4	107	25	25	21	27	1.99
10144305--10144337	11	2.8	12	86	13	50	27	9	0	63	1.24
10144631--10144660	2	15.0	2	100	0	60	50	0	0	50	1.00
10146975--10147027	26	2.0	27	92	3	90	43	1	3	50	1.30
10149956--10150003	2	24.5	2	95	4	89	50	0	0	50	1.00
10150249--10150401	52	2.9	52	87	1	209	26	18	20	33	1.96
10151004--10151197	2	97.5	2	68	18	75	45	1	6	46	1.37
10151242--10151334	35	2.8	33	83	6	114	38	5	8	47	1.57
10152427--10152495	23	3.0	23	86	0	102	31	24	26	17	1.97
10159340--10159426	23	3.8	23	92	0	138	32	26	26	14	1.95
10161997--10162030	16	2.1	17	94	5	61	44	5	5	44	1.52
10162343--10162604	139	1.9	140	79	7	300	26	20	15	37	1.92
10163268--10163318	22	2.3	22	86	0	66	45	9	11	33	1.74
10171848--10172100	21	11.8	21	71	5	164	37	24	16	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10171923--10172100	44	4.1	44	79	4	150	35	24	17	22	1.95
10175032--10175110	25	3.2	25	96	0	140	21	36	13	27	1.92
10175309--10175340	15	2.0	17	88	11	50	46	6	15	31	1.71
10175437--10175488	26	2.0	25	85	3	68	53	28	0	17	1.44
10176638--10176913	68	4.1	68	93	0	464	31	14	18	35	1.91
10177034--10177073	3	13.3	3	100	0	80	0	32	0	67	0.91
10181335--10181471	21	6.4	21	70	12	100	37	23	15	24	1.93
10181340--10181469	42	3.0	42	78	4	125	36	23	14	25	1.93
10183650--10183702	27	2.0	27	88	0	79	37	13	7	41	1.72
10183755--10183921	2	80.0	2	65	26	55	46	4	5	43	1.47
10183754--10183955	18	11.4	18	79	13	222	46	4	6	42	1.51
10183748--10183981	69	3.3	69	84	9	271	45	4	6	43	1.50
10183755--10183955	87	2.3	90	92	2	336	46	4	5	42	1.50
10186613--10186842	120	1.9	120	78	7	252	32	30	4	33	1.77
10186811--10186993	100	1.8	99	85	4	260	35	30	4	28	1.78
10189623--10189676	25	2.2	25	82	0	63	68	5	1	24	1.21
10189669--10189706	15	2.5	15	87	8	51	76	0	2	21	0.91
10191601--10192429	277	3.0	276	90	1	1299	34	20	16	29	1.94
10192268--10192390	42	3.0	41	78	4	131	29	21	21	27	1.99
10192547--10192666	58	2.1	59	82	7	147	40	15	9	34	1.79
10194180--10194223	15	2.9	15	83	9	54	0	18	0	81	0.68
10195296--10195362	13	4.9	14	75	15	61	52	13	22	11	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10195295--10195362	20	3.4	19	68	11	55	52	13	22	11	1.72
10200366--10200399	17	2.0	17	88	0	50	11	17	26	44	1.83
10200599--10200989	194	2.0	195	98	1	766	32	8	11	47	1.70
10201906--10201987	36	2.3	36	97	0	155	41	7	12	39	1.70
10201906--10202009	36	2.9	36	89	0	127	38	9	14	37	1.79
10203194--10203241	18	2.6	17	80	9	51	37	4	4	54	1.39
10209271--10209319	16	3.0	16	87	3	71	69	2	0	28	1.00
10209271--10209321	8	6.1	8	76	15	50	68	1	0	29	1.00
10209278--10209345	21	3.1	22	75	12	61	66	2	0	30	1.07
10210001--10210030	3	10.0	3	100	0	60	66	0	0	33	0.92
10211444--10211480	2	18.5	2	100	0	74	48	0	0	51	1.00
10213363--10213427	29	2.2	29	89	8	96	20	26	36	16	1.93
10213423--10213491	9	7.1	10	76	12	63	27	28	23	20	1.99
10213421--10213491	19	3.7	19	84	1	88	26	28	25	19	1.99
10220275--10220341	19	3.5	20	87	6	93	28	31	23	16	1.96
10220275--10220341	9	7.0	9	75	12	62	28	31	23	16	1.96
10220277--10220329	10	5.5	10	80	8	65	28	32	22	16	1.96
10221986--10222049	33	1.9	34	84	6	87	53	4	9	32	1.54
10222121--10222174	2	30.5	2	76	23	50	57	1	0	40	1.09
10223311--10223359	2	25.5	2	87	8	75	51	0	2	46	1.12
10223659--10224418	105	7.4	105	92	6	1223	21	18	25	34	1.96
10229936--10229974	20	2.0	20	85	10	53	79	2	2	15	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10230495--10230575	38	2.1	38	80	13	87	60	2	2	34	1.23
10230513--10230576	9	6.3	10	78	14	53	57	3	0	39	1.14
10231725--10231757	2	16.5	2	100	0	66	48	0	0	51	1.00
10235592--10235629	2	19.0	2	88	0	58	50	0	47	2	1.15
10237386--10237622	60	4.0	60	83	6	268	31	19	6	42	1.77
10237411--10237508	29	3.3	29	70	16	92	31	18	5	44	1.71
10237403--10237622	120	1.8	120	84	5	302	30	20	6	41	1.78
10237774--10237923	59	2.5	58	80	6	165	41	5	20	33	1.75
10240942--10240978	2	18.5	2	94	0	65	45	0	0	54	1.00
10242327--10242378	23	2.3	23	93	0	86	30	25	21	23	1.99

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