genome.fa.s9462.2.7.7.80.10.50.1000.32.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  32  of  91  ( 10815 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)
6825330--6825438	40	2.6	43	81	7	118	24	27	20	27	1.99
6825598--6825652	3	18.0	3	88	3	74	36	1	1	60	1.18
6827619--6827663	2	22.5	2	100	0	90	48	0	0	51	1.00
6827829--6828011	68	2.7	68	91	0	294	28	23	13	33	1.93
6827961--6828172	80	2.6	81	90	1	336	28	23	12	35	1.91
6828122--6828258	68	2.0	68	91	0	220	29	23	13	33	1.92
6828518--6828570	22	2.5	20	84	6	61	28	22	16	32	1.96
6840567--6840622	27	2.1	27	100	0	112	32	10	0	57	1.33
6847754--6847780	13	2.1	13	100	0	54	33	7	7	51	1.58
6851355--6851453	20	4.9	20	92	0	162	14	30	33	22	1.93
6852874--6852921	19	2.5	20	82	3	62	31	10	6	52	1.60
6854197--6854296	21	4.8	21	90	1	139	20	29	37	14	1.91
6858165--6858195	15	2.1	15	93	0	53	6	22	3	67	1.28
6860595--6860668	31	2.4	30	80	6	85	52	13	9	24	1.70
6861859--6861931	36	2.0	37	97	2	139	35	13	10	39	1.80
6862131--6862171	17	2.3	19	79	8	50	60	0	2	36	1.10
6862896--6862920	12	2.1	12	100	0	50	52	0	0	48	1.00
6863589--6863658	15	4.6	15	73	8	52	18	1	2	77	0.97
6866929--6867413	44	11.0	44	90	0	718	41	12	21	24	1.88
6872384--6873154	44	17.9	44	77	9	639	41	12	19	25	1.87
6872485--6872549	30	2.2	30	88	5	96	33	15	26	24	1.95
6872522--6873161	44	14.6	45	83	5	756	41	13	19	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6879156--6879195	19	2.1	19	85	0	53	35	15	7	42	1.75
6885743--6885778	17	2.1	17	89	0	54	44	2	0	52	1.15
6885834--6885886	27	2.0	27	85	3	72	39	5	0	54	1.24
6887160--6887195	14	2.5	14	90	4	54	36	0	0	63	0.94
6887333--6887362	2	15.0	2	100	0	60	50	0	0	50	1.00
6888144--6888194	15	3.2	16	83	8	68	13	23	31	31	1.93
6888144--6888204	32	1.9	31	83	9	79	14	24	29	31	1.95
6891110--6891147	20	1.9	20	84	10	51	2	21	21	55	1.56
6892109--6892154	19	2.4	19	96	0	83	39	10	6	43	1.66
6892255--6892297	2	22.0	2	95	4	79	51	0	0	48	1.00
6892741--6892789	24	2.0	24	92	0	80	26	26	16	30	1.97
6894829--6894865	18	2.1	18	100	0	74	29	27	0	43	1.55
6903180--6903254	24	3.2	24	69	17	75	33	24	22	20	1.97
6903186--6903260	23	3.2	23	72	14	73	33	28	22	16	1.95
6903379--6903449	25	2.8	25	95	0	124	28	25	25	21	1.99
6903534--6903596	30	2.1	30	90	0	99	36	19	4	39	1.72
6903740--6903884	54	2.7	53	86	8	195	24	16	28	31	1.96
6906462--6906618	37	4.1	38	72	17	128	41	1	7	49	1.42
6907366--6908044	334	2.0	345	96	3	1272	31	13	14	40	1.84
6911576--6911609	2	17.0	2	100	0	68	50	0	0	50	1.00
6911843--6911910	2	34.0	2	100	0	136	50	0	0	50	1.00
6913458--6913560	50	2.1	50	92	0	170	22	21	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6914130--6914309	36	4.9	36	86	3	225	40	15	17	26	1.89
6914300--6914325	13	2.0	13	100	0	52	46	15	15	23	1.83
6914261--6914361	52	1.9	52	93	0	175	38	15	19	25	1.92
6914313--6914631	39	8.2	39	89	0	476	36	15	21	26	1.93
6914189--6914559	117	3.0	124	80	10	350	38	15	19	26	1.92
6914555--6914619	22	3.2	22	62	20	59	32	15	20	32	1.93
6920399--6920435	2	18.5	2	100	0	74	48	0	0	51	1.00
6920478--6920511	2	17.0	2	93	0	59	50	2	0	47	1.16
6920610--6920646	2	18.5	2	100	0	74	51	0	0	48	1.00
6921142--6921169	2	14.0	2	100	0	56	50	0	0	50	1.00
6928771--6928830	29	2.1	29	100	0	120	31	10	11	46	1.73
6928773--6928838	29	2.3	28	89	7	89	28	10	10	50	1.70
6930762--6930963	63	3.0	68	79	12	274	48	11	12	27	1.75
6942776--6943303	215	2.5	215	88	1	783	29	10	8	52	1.65
6943239--6943284	22	2.1	22	84	8	58	32	4	0	63	1.14
6943577--6943638	27	2.3	27	97	0	115	37	32	19	11	1.87
6943792--6943846	27	2.0	27	100	0	110	45	21	7	25	1.77
6944302--6944346	20	2.2	20	100	0	90	37	8	26	26	1.86
6944375--6944411	18	2.1	18	90	5	58	48	10	8	32	1.67
6945981--6946039	23	2.6	23	73	10	66	10	23	16	49	1.77
6946681--6946706	2	13.0	2	100	0	52	50	0	0	50	1.00
6948518--6948621	32	3.3	32	93	2	167	23	17	23	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6951879--6952032	64	2.5	62	88	5	229	25	16	23	34	1.95
6951880--6952015	32	4.3	32	94	1	231	25	16	22	35	1.95
6953766--6953838	20	3.7	20	80	7	85	28	17	24	28	1.98
6953766--6953860	40	2.3	42	83	3	113	27	16	24	31	1.97
6954874--6955280	203	2.0	203	95	1	737	36	14	18	29	1.91
6958578--6958821	95	2.7	92	81	11	292	31	16	18	33	1.93
6959951--6961992	84	24.7	83	79	4	2094	30	24	19	25	1.98
6959951--6962184	248	9.0	248	89	2	3174	30	24	19	25	1.98
6961895--6962088	96	2.0	95	81	2	226	28	23	20	27	1.99
6961991--6962233	84	2.9	85	81	3	276	30	24	20	24	1.99
6962811--6963036	39	6.2	39	74	15	205	45	3	7	42	1.51
6962898--6962962	30	2.2	30	91	2	105	46	3	6	44	1.44
6962858--6962992	68	2.0	68	88	2	200	44	3	7	44	1.49
6963031--6963106	34	2.2	36	85	4	102	47	1	1	50	1.18
6963156--6963208	10	5.0	10	80	15	54	20	5	0	73	1.03
6963156--6963210	16	3.5	15	79	13	58	21	7	0	70	1.11
6964437--6964509	25	3.1	25	70	22	68	20	8	0	71	1.11
6964520--6964572	12	4.5	11	80	19	54	16	1	3	77	1.01
6964552--6964601	9	5.6	9	83	9	66	22	2	2	74	1.03
6966276--6966310	17	2.0	18	88	5	54	40	0	5	54	1.24
6966379--6966502	5	25.6	5	79	14	120	18	0	0	81	0.69
6966387--6966501	7	16.3	7	83	15	148	17	0	0	82	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6966382--6966501	1	120.0	1	64	0	51	17	0	0	82	0.67
6968634--6968680	13	3.7	13	85	2	69	10	19	46	23	1.80
6975823--6975857	18	1.9	18	94	0	61	25	22	37	14	1.92
6982197--6982245	21	2.3	21	83	13	57	20	12	10	57	1.64
6990122--6990647	55	9.5	55	84	2	554	30	21	21	26	1.98
6990936--6990969	16	2.1	16	100	0	68	23	0	0	76	0.79
6999408--6999455	22	2.3	20	85	7	60	22	10	6	60	1.52
7007364--7007634	51	5.0	55	75	12	213	33	8	15	42	1.77
7007341--7007634	109	2.7	108	83	6	355	32	8	16	42	1.79
7007689--7007806	42	2.8	41	78	7	121	25	20	22	32	1.98
7009515--7009562	22	2.3	20	85	7	60	22	10	6	60	1.52
7009573--7009615	11	3.7	11	81	9	50	13	2	9	74	1.16
7009590--7009643	22	2.5	21	77	19	58	18	1	9	70	1.23
7015341--7015381	22	1.9	21	90	5	64	24	0	4	70	1.06
7018581--7018627	5	9.6	5	88	4	69	0	14	61	23	1.33
7018581--7018628	19	2.5	19	89	3	69	0	14	60	25	1.34
7018629--7018680	19	2.7	19	88	5	70	34	26	23	15	1.94
7018650--7018724	10	7.6	10	72	12	66	33	28	25	13	1.93
7018650--7018724	20	3.8	20	84	8	84	33	28	25	13	1.93
7025868--7025941	9	7.7	9	74	14	67	36	28	20	14	1.92
7025868--7025941	30	2.5	28	86	6	94	36	28	20	14	1.92
7026385--7026417	17	1.9	17	88	11	50	27	18	36	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7026747--7026780	2	17.0	2	100	0	68	50	0	0	50	1.00
7027077--7027109	3	11.0	3	100	0	66	66	0	0	33	0.92
7027650--7027692	21	2.0	21	82	13	52	53	0	2	44	1.13
7030335--7030686	79	4.5	76	79	9	370	25	16	19	39	1.91
7043499--7043529	6	5.2	6	92	0	53	51	19	12	16	1.76
7053879--7053926	24	2.0	23	84	4	60	60	2	0	37	1.09
7056383--7056407	3	8.3	3	100	0	50	68	0	0	32	0.90
7056781--7056830	23	2.2	23	100	0	100	42	6	12	40	1.67
7056781--7056838	23	2.5	23	94	2	89	44	8	10	36	1.69
7063499--7063527	14	2.0	15	93	6	51	20	13	10	55	1.68

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91