genome.fa.s9462.2.7.7.80.10.50.1000.29.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  29  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)
5990906--5990973	13	5.4	12	78	14	75	47	1	0	51	1.09
5990921--5990979	19	3.1	19	97	2	109	47	0	1	50	1.11
5991914--5992156	110	2.2	109	81	5	267	19	11	18	49	1.79
5993773--5993818	19	2.4	19	100	0	92	76	4	4	15	1.11
5996257--5996312	29	1.9	29	82	7	69	44	0	3	51	1.18
6007483--6007570	24	3.7	24	90	0	131	22	19	21	36	1.95
6009124--6009166	18	2.4	18	84	0	59	37	18	0	44	1.50
6009133--6009169	18	2.1	18	94	0	65	37	13	0	48	1.43
6009386--6009467	21	3.8	21	70	12	67	35	25	18	20	1.95
6009382--6009473	44	2.1	43	84	6	114	36	22	19	20	1.95
6009845--6009916	31	2.4	30	77	6	85	33	20	13	31	1.92
6012941--6012982	18	2.3	18	87	0	57	33	19	0	47	1.49
6012949--6012985	18	2.1	18	94	0	65	35	13	0	51	1.41
6013198--6013289	44	2.1	43	87	2	130	33	22	18	25	1.97
6013202--6013280	21	3.7	21	73	6	86	31	25	16	26	1.96
6013650--6013725	31	2.6	31	75	8	79	34	21	14	30	1.93
6019194--6019294	40	2.5	40	81	1	112	28	18	15	36	1.92
6019194--6019319	41	3.1	41	78	6	114	26	20	16	35	1.94
6019222--6019451	123	1.9	123	86	1	327	29	21	16	32	1.95
6021246--6021290	24	1.9	23	81	4	54	28	15	24	31	1.96
6022363--6022473	53	2.1	54	87	1	161	44	18	15	21	1.87
6022416--6022732	43	7.4	43	87	0	438	41	20	17	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6024141--6024307	81	2.1	81	93	0	289	37	13	20	28	1.91
6025211--6025244	16	2.1	16	88	0	50	79	2	2	14	0.97
6025227--6025273	20	2.4	19	85	3	58	70	2	8	19	1.24
6031821--6031850	15	1.9	16	93	6	53	56	3	0	40	1.16
6033022--6033088	24	2.8	25	88	4	75	13	8	4	73	1.23
6033034--6033088	24	2.2	25	96	3	85	14	7	5	72	1.24
6034467--6034513	25	1.9	25	86	4	69	46	0	21	31	1.51
6035466--6035512	20	2.3	21	85	3	60	27	25	21	25	1.99
6038159--6038205	25	1.9	25	86	4	69	46	0	21	31	1.51
6039034--6039090	21	2.7	21	86	0	78	33	8	24	33	1.86
6039162--6039230	20	3.5	20	72	7	77	31	21	17	28	1.96
6039161--6039250	40	2.2	40	100	0	180	34	21	16	27	1.95
6039182--6039250	20	3.5	20	72	7	77	37	21	13	27	1.90
6039161--6039270	40	2.8	40	90	2	132	32	21	18	27	1.96
6039829--6039867	20	2.0	20	89	0	60	28	7	33	30	1.85
6046641--6046735	3	32.0	3	91	4	77	66	9	1	23	1.27
6050849--6050946	48	2.0	48	96	0	178	51	8	2	38	1.43
6051307--6051439	27	4.9	27	79	3	133	33	18	24	23	1.96
6051303--6051450	54	2.7	54	75	2	145	33	18	22	25	1.97
6061015--6061072	26	2.3	26	85	8	75	81	3	8	6	0.98
6061026--6061076	16	3.2	16	78	15	61	82	0	9	7	0.85
6063653--6063826	48	3.8	46	80	11	187	27	21	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6063972--6064098	48	2.6	47	82	4	155	30	17	17	34	1.93
6063759--6064045	113	2.6	113	86	2	368	28	21	15	33	1.95
6063864--6064206	161	2.1	161	86	1	472	29	21	16	32	1.95
6063703--6064307	274	2.2	269	85	3	804	28	21	15	33	1.95
6064020--6064309	113	2.6	113	83	3	352	29	21	16	33	1.95
6064673--6064744	22	3.5	20	77	19	69	37	2	0	59	1.12
6064688--6064744	25	2.2	25	84	9	69	36	1	0	61	1.07
6076522--6076573	16	3.2	16	91	0	86	9	13	32	44	1.76
6079176--6079206	16	1.9	16	93	0	53	16	35	29	19	1.93
6079624--6086545	944	7.4	945	85	3	8685	37	15	14	31	1.89
6088341--6088380	19	2.1	19	90	0	62	52	7	5	35	1.51
6090600--6090668	21	3.3	20	75	15	68	33	20	18	27	1.96
6095006--6095050	18	2.5	19	78	10	58	8	24	6	60	1.51
6097589--6097622	16	2.1	16	88	0	50	17	23	26	32	1.97
6097786--6097820	2	17.5	2	93	0	61	48	2	0	48	1.16
6099326--6099445	35	3.4	36	73	14	115	30	15	14	40	1.87
6109373--6109437	30	2.2	30	82	0	76	12	23	27	36	1.90
6114286--6114327	22	1.9	22	95	0	75	26	19	14	40	1.89
6123471--6123518	19	2.5	19	96	0	87	29	12	35	22	1.91
6134922--6134974	22	2.4	22	96	0	97	56	5	5	32	1.46
6136629--6137221	132	4.5	132	88	1	814	29	20	20	29	1.97
6136886--6137103	44	5.0	44	70	11	133	31	18	20	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6154333--6154367	18	1.9	18	88	11	54	8	11	5	74	1.22
6156624--6156712	3	29.7	3	93	4	153	33	2	0	64	1.06
6158048--6158111	25	2.4	27	76	7	69	20	3	6	70	1.23
6158923--6159406	241	2.0	246	84	6	649	28	9	21	40	1.84
6161765--6161836	2	37.0	2	81	15	89	47	2	1	48	1.25
6161764--6161836	23	3.2	23	85	14	91	46	2	1	49	1.24
6161778--6161836	25	2.3	25	91	2	91	47	1	1	49	1.21
6161867--6161948	40	2.1	40	86	4	114	32	4	1	60	1.25
6163294--6163326	17	1.9	17	93	0	57	39	12	0	48	1.40
6163876--6163918	12	3.7	12	81	3	52	32	11	16	39	1.84
6164011--6164501	239	2.0	248	94	3	865	23	17	21	37	1.94
6177513--6177547	18	1.9	18	88	11	54	8	11	5	74	1.22
6179852--6179931	3	26.7	3	85	9	110	33	5	0	61	1.18
6181108--6181148	22	1.9	21	85	14	57	17	14	14	53	1.73
6181262--6181325	25	2.4	27	76	7	69	20	3	6	70	1.23
6188246--6188478	39	5.9	39	67	26	118	28	6	1	63	1.29
6188265--6188311	21	2.5	18	81	18	60	19	6	0	74	1.03
6188384--6188469	22	4.0	22	69	17	72	27	4	2	65	1.25
6188453--6188490	18	2.1	18	85	9	51	18	5	0	76	0.97
6188471--6188495	13	1.9	13	100	0	50	12	8	0	80	0.92
6189593--6189642	20	2.5	20	78	15	59	46	2	0	52	1.12
6190498--6190580	12	6.9	12	88	0	121	30	9	19	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6190675--6191175	249	2.0	248	96	0	921	23	17	21	37	1.94
6197566--6197624	26	2.3	26	90	0	91	30	18	32	18	1.95
6206086--6206210	63	2.0	63	95	0	223	41	20	11	27	1.86
6211426--6211963	111	4.8	111	80	4	564	27	17	22	32	1.97
6211426--6211938	222	2.3	223	84	3	665	27	17	22	32	1.97
6218994--6219054	27	2.3	27	94	0	104	29	26	18	26	1.98
6219644--6219677	16	2.1	16	100	0	68	38	26	5	29	1.80
6223580--6223640	27	2.3	27	97	0	113	29	22	18	29	1.97
6228958--6228983	6	4.3	6	100	0	52	84	0	15	0	0.62
6231881--6231920	19	2.1	19	100	0	80	42	17	0	40	1.49
6234166--6234226	20	2.9	21	82	7	70	14	26	36	22	1.93
6240617--6240837	74	3.2	67	69	12	180	19	10	9	59	1.58
6240599--6240884	140	2.1	139	90	2	448	20	12	10	56	1.64
6240633--6240856	73	3.2	73	68	13	214	19	11	11	57	1.63
6240656--6240879	73	3.2	73	68	15	189	19	10	10	58	1.60
6241147--6241185	16	2.4	16	87	8	53	15	12	2	69	1.30
6247749--6247793	22	2.0	22	86	0	63	33	20	17	28	1.95
6254925--6254978	19	2.8	20	83	11	67	50	11	1	37	1.49
6255433--6255477	20	2.2	20	92	0	72	26	28	15	28	1.96
6255440--6255483	20	2.2	20	91	0	70	29	29	13	27	1.94
6255804--6255828	7	3.6	7	100	0	50	28	16	0	56	1.41
6266658--6267057	137	2.9	137	74	10	350	41	14	14	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6269421--6269542	59	2.1	59	85	0	163	29	22	15	32	1.95
6272522--6272550	14	2.0	15	93	6	51	62	0	0	37	0.96
6273075--6273244	79	2.2	79	81	6	202	30	18	16	34	1.93
6274829--6275107	54	5.1	54	74	11	235	40	19	9	29	1.84
6274809--6275109	111	2.7	108	77	10	286	41	18	8	30	1.82
6278626--6278659	2	17.0	2	87	0	50	44	0	5	50	1.26
6284051--6284665	95	6.5	95	81	7	685	34	14	10	40	1.80
6284223--6284283	29	2.1	29	87	0	86	39	16	8	36	1.78
6284005--6284600	193	3.1	192	82	7	699	34	14	9	41	1.79
6284942--6285332	139	2.8	139	85	3	504	36	16	19	27	1.93

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