genome.fa.s9634.2.7.7.80.10.50.1000.58.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  58  of  78  ( 9351 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)
11643710--11643762	19	2.7	19	91	5	79	24	43	0	32	1.55
11645849--11645887	16	2.6	15	88	8	53	51	2	2	43	1.29
11646957--11647001	18	2.5	18	81	0	54	28	4	2	64	1.25
11646972--11647037	17	3.8	18	78	13	68	31	3	6	59	1.37
11647117--11647209	4	23.0	4	75	16	52	20	3	2	74	1.07
11657531--11657593	1	63.0	1	77	0	63	88	11	0	0	0.50
11657533--11657593	8	7.6	8	89	10	90	88	11	0	0	0.51
11657531--11657587	22	2.7	21	89	7	89	89	10	0	0	0.49
11658429--11659205	105	7.4	105	95	0	1320	32	25	18	22	1.97
11659667--11659705	16	2.6	15	88	8	53	51	2	2	43	1.29
11660776--11660820	18	2.5	18	81	0	54	28	4	2	64	1.25
11660791--11660856	17	3.8	18	78	13	68	31	3	6	59	1.37
11660936--11661028	4	23.0	4	75	16	52	20	3	2	74	1.07
11661431--11661512	23	3.6	22	75	8	85	26	23	25	24	2.00
11667166--11667373	65	3.2	64	78	12	210	27	17	22	32	1.96
11667688--11667780	37	2.5	37	79	6	91	34	12	19	33	1.90
11668908--11668956	6	8.3	6	77	20	50	0	18	2	79	0.83
11668908--11668958	17	2.9	17	82	2	66	0	17	1	80	0.81
11668909--11668964	25	2.2	26	81	12	71	0	19	1	78	0.84
11668912--11668960	18	2.8	18	78	12	57	0	18	2	79	0.83
11668952--11669017	15	4.3	15	83	9	89	9	12	4	74	1.21
11668952--11669032	32	2.6	30	84	11	92	8	13	6	71	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11674494--11674546	3	18.3	3	75	21	51	67	0	1	30	1.01
11674512--11674549	16	2.4	16	86	8	51	73	0	2	23	0.95
11677438--11677692	35	7.3	34	72	12	124	43	10	3	41	1.57
11677438--11677693	70	3.7	68	78	9	243	43	10	3	42	1.57
11677484--11677726	70	3.4	73	80	7	221	41	8	3	46	1.51
11690738--11690922	35	5.2	35	78	13	164	43	9	2	45	1.48
11690738--11690922	70	2.6	71	78	9	189	43	9	2	45	1.48
11691660--11691688	15	1.9	15	100	0	58	6	37	20	34	1.80
11695802--11695877	39	1.9	39	89	0	116	34	10	19	35	1.86
11698620--11699191	287	2.0	287	87	3	823	28	23	11	35	1.90
11702885--11702909	7	3.6	7	100	0	50	32	56	0	12	1.36
11706933--11707006	21	3.3	21	87	9	94	21	5	32	40	1.76
11716621--11716657	19	2.0	19	89	5	58	13	40	24	21	1.89
11716723--11716748	3	8.7	3	100	0	52	69	0	0	30	0.89
11716831--11717120	35	8.3	35	79	9	263	42	11	3	42	1.57
11718757--11718804	3	16.0	3	87	8	71	37	0	0	62	0.95
11718754--11718804	14	3.9	14	85	12	72	37	0	0	62	0.95
11719968--11719998	2	16.0	2	93	6	55	48	0	0	51	1.00
11731440--11731574	36	3.7	36	84	4	173	43	16	20	20	1.88
11731761--11731807	3	15.7	3	84	8	60	38	2	0	59	1.09
11732987--11733063	2	38.5	2	100	0	154	49	0	0	50	1.00
11740610--11740634	9	2.8	9	100	0	50	44	36	8	12	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11741660--11741699	21	1.9	21	94	0	71	40	20	5	35	1.74
11744475--11744530	28	2.0	28	96	0	103	30	19	7	42	1.78
11744478--11744537	28	2.1	28	90	0	93	33	20	8	38	1.82
11746604--11746670	21	3.0	23	81	14	70	23	5	32	37	1.79
11746622--11746670	21	2.3	22	89	3	73	24	6	32	36	1.80
11746635--11746677	21	2.0	21	86	0	59	30	4	25	39	1.76
11754278--11754308	16	2.0	16	93	6	55	32	6	12	48	1.67
11756022--11756091	27	2.8	24	75	10	68	28	4	21	45	1.70
11756286--11756350	29	2.3	28	86	2	85	24	4	16	53	1.62
11756279--11756374	28	3.4	28	80	8	88	26	5	17	51	1.67
11756426--11756479	16	3.6	16	69	19	53	29	5	11	53	1.59
11756406--11756475	28	2.5	28	88	2	97	28	7	12	51	1.66
11756423--11756475	14	3.8	14	79	0	61	32	5	11	50	1.61
11756511--11756565	26	2.1	26	86	0	74	38	10	7	43	1.68
11773922--11773969	8	6.1	8	80	2	53	29	2	2	66	1.14
11774097--11774170	29	2.7	26	73	20	78	50	4	0	45	1.20
11781496--11781555	28	2.2	27	82	8	68	45	5	1	48	1.34
11781657--11781720	19	3.3	19	77	12	76	43	1	1	53	1.19
11782065--11782089	13	1.9	13	100	0	50	16	8	4	72	1.24
11785151--11785182	17	1.9	16	93	6	55	65	0	0	34	0.93
11794817--11794863	24	2.0	24	86	0	67	21	6	14	57	1.60
11794783--11794889	48	2.2	48	81	3	117	21	8	14	56	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11797423--11797515	36	2.6	37	74	6	102	38	2	0	59	1.10
11799695--11799742	25	2.0	24	83	4	60	16	2	14	66	1.34
11799703--11799751	25	1.9	26	84	12	66	10	4	16	69	1.32
11800658--11800704	24	1.9	24	82	4	58	42	0	0	57	0.98
11804601--11804660	28	2.2	27	82	8	68	45	5	1	48	1.34
11806059--11806096	18	2.1	18	95	0	67	34	5	5	55	1.45
11806435--11806518	44	1.9	44	87	0	123	32	21	15	30	1.94
11806435--11806531	44	2.2	44	84	0	122	32	21	14	30	1.93
11812320--11812392	21	3.5	21	74	7	76	27	19	16	36	1.93
11814493--11814517	13	1.9	13	100	0	50	36	0	16	48	1.46
11815300--11815344	22	2.0	24	82	8	58	44	22	13	20	1.85
11816928--11816974	23	2.1	22	84	4	58	40	4	2	53	1.32
11818072--11818128	23	2.4	24	82	8	71	38	0	0	61	0.96
11821955--11821988	15	2.1	17	89	10	54	26	5	0	67	1.13
11822260--11822298	19	2.1	19	85	0	51	53	2	0	43	1.14
11825524--11825607	27	2.9	27	71	25	73	32	2	0	65	1.05
11825535--11825581	25	1.9	24	86	4	67	38	0	0	61	0.96
11826154--11826185	13	2.5	13	100	0	64	62	0	31	6	1.20
11828192--11828249	24	2.4	24	79	0	62	17	10	18	53	1.71
11828211--11828305	24	4.0	24	83	0	100	24	4	15	55	1.58
11828322--11828618	156	1.9	156	85	5	413	19	13	31	36	1.90
11834308--11834367	20	2.8	21	87	7	77	20	21	33	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11843159--11843207	17	2.9	17	81	9	64	12	24	32	30	1.92
11848851--11848909	24	2.5	24	80	0	73	18	8	18	54	1.68
11848928--11849235	156	2.0	156	88	2	467	18	13	31	37	1.89
11852227--11852294	24	2.8	24	80	8	84	22	8	17	51	1.72
11855909--11855979	24	3.0	24	77	8	81	22	5	16	54	1.63
11855871--11855979	48	2.3	48	80	3	112	22	8	16	53	1.69
11855996--11856304	155	2.0	156	85	3	417	20	11	29	38	1.87
11858253--11858284	15	2.0	17	88	11	50	25	6	0	68	1.12
11865620--11865653	15	2.1	17	89	10	54	26	5	0	67	1.13
11865896--11865959	19	3.3	19	78	4	74	43	1	0	54	1.09
11867659--11867688	11	2.9	10	90	9	51	33	0	0	66	0.92
11868942--11868988	21	2.2	21	100	0	94	40	4	10	44	1.59
11874515--11874557	20	2.3	18	88	8	59	20	18	0	60	1.36
11884193--11884530	182	1.9	181	90	3	545	33	12	13	40	1.82
11892022--11892054	6	5.7	6	96	3	59	12	0	0	87	0.53
11904948--11905453	175	2.9	176	85	8	619	31	14	13	41	1.84
11905481--11905521	20	2.0	21	85	4	57	34	7	14	43	1.73
11906102--11906145	16	2.7	16	85	3	52	68	4	2	25	1.20
11906118--11906175	21	2.7	21	79	15	64	72	1	3	22	1.09
11906250--11906290	15	2.8	16	89	10	61	21	24	4	48	1.69
11927588--11927625	18	2.1	18	90	9	60	23	0	0	76	0.79
11929068--11929117	20	2.4	22	80	6	59	16	16	8	60	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11930484--11930567	18	4.3	19	76	18	75	79	2	14	3	0.96
11930492--11930567	11	6.5	11	80	8	71	80	2	14	2	0.93
11930492--11930567	12	6.3	12	80	7	57	80	2	14	2	0.93
11930495--11930570	24	3.3	22	80	10	73	78	2	15	2	0.97
11932773--11932859	42	2.1	41	81	10	97	26	20	18	34	1.96
11933128--11933165	18	2.1	18	90	0	58	31	21	21	26	1.98
11933695--11934176	135	3.6	136	85	3	616	37	17	19	25	1.94
11934192--11934306	42	2.7	43	86	6	171	27	22	18	31	1.97
11935864--11935917	20	2.8	20	77	5	58	14	0	7	77	0.97
11938621--11938677	21	2.7	21	91	0	87	35	14	15	35	1.88

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