genome.fa.s1129.2.7.7.80.10.50.1000.61.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   

This is table  61  of  89  ( 10573 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)
14063514--14063582	33	2.1	33	83	5	86	30	36	1	31	1.67
14066133--14066176	8	5.2	8	82	17	54	0	25	0	75	0.81
14066896--14066947	19	2.6	21	90	6	81	46	5	13	34	1.67
14069208--14069248	16	2.6	16	84	0	55	70	0	12	17	1.16
14069677--14069771	45	2.0	48	80	13	110	57	0	24	17	1.40
14069722--14069764	15	2.9	15	96	0	77	55	0	27	16	1.41
14071566--14071611	19	2.3	20	85	3	58	34	15	6	43	1.72
14071956--14072060	36	2.9	36	94	1	176	31	35	4	28	1.78
14087447--14087489	23	1.9	21	81	13	50	34	13	18	32	1.90
14088713--14088776	28	2.3	28	81	5	67	10	14	14	60	1.58
14091267--14091318	19	2.6	21	90	6	81	46	7	13	32	1.72
14094620--14094661	19	2.3	19	87	4	59	7	14	2	76	1.10
14095395--14095446	19	2.6	21	90	6	81	46	7	13	32	1.72
14098491--14098533	10	3.7	12	78	15	54	74	6	16	2	1.14
14098482--14098548	22	3.1	21	85	10	91	76	8	11	2	1.13
14112197--14112282	13	7.2	12	72	22	58	29	3	37	30	1.74
14112179--14112283	36	2.9	36	95	1	185	28	4	36	30	1.78
14116213--14116254	14	2.9	15	80	16	52	2	14	2	80	0.90
14116280--14116325	23	2.1	21	84	8	56	0	13	6	80	0.89
14116707--14116753	24	2.0	23	84	15	62	34	4	29	31	1.77
14116715--14116811	36	2.7	36	90	1	151	31	5	34	28	1.79
14124174--14124237	5	12.4	5	87	12	78	0	23	0	76	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14124177--14124254	26	3.0	26	92	5	122	1	21	1	75	0.94
14124169--14124237	8	8.5	8	83	15	88	0	24	0	75	0.81
14124174--14124230	18	3.2	18	85	14	82	0	22	0	77	0.77
14132968--14132997	13	2.4	13	94	5	53	26	30	0	43	1.55
14139848--14139952	36	2.9	36	90	1	158	31	34	3	30	1.76
14139851--14139935	11	7.2	11	73	22	66	32	34	2	30	1.71
14144756--14144810	24	2.3	25	81	6	60	32	16	21	29	1.95
14149432--14149536	36	2.9	36	87	6	151	32	34	3	29	1.76
14149435--14149519	11	7.2	11	73	22	66	34	34	2	29	1.71
14150915--14150973	23	2.6	23	88	0	91	62	11	16	8	1.52
14170724--14170803	35	2.2	37	86	4	110	31	37	3	27	1.74
14171195--14171238	14	3.3	13	81	9	54	75	4	15	4	1.14
14171208--14171246	20	2.0	20	84	0	51	74	5	15	5	1.17
14171182--14171249	26	2.7	25	80	19	79	73	5	17	2	1.16
14174751--14174813	13	4.9	14	71	23	50	33	36	1	28	1.67
14174775--14174832	11	5.1	11	76	19	57	34	36	3	25	1.73
14174753--14174832	35	2.2	37	88	4	119	33	37	2	26	1.70
14175210--14175266	26	2.1	27	87	9	82	77	5	15	1	1.03
14175219--14175277	26	2.2	26	85	8	75	76	5	15	3	1.10
14178778--14178839	13	4.9	13	72	18	51	32	37	1	29	1.67
14178780--14178859	35	2.2	37	88	4	119	32	37	2	27	1.70
14179237--14179290	23	2.2	23	83	12	63	74	5	18	1	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14182802--14182863	13	4.9	13	72	18	51	32	37	1	29	1.67
14182804--14182883	35	2.2	37	88	4	119	32	37	2	27	1.70
14183261--14183317	26	2.1	27	84	9	73	75	5	17	1	1.07
14186830--14186891	13	4.9	13	72	18	51	32	37	1	29	1.67
14186832--14186911	35	2.2	37	88	4	119	32	37	2	27	1.70
14187297--14187355	26	2.3	25	85	5	73	74	5	16	3	1.13
14197060--14197139	35	2.2	37	86	8	112	32	36	3	27	1.75
14197517--14197573	26	2.1	27	84	9	73	75	5	17	1	1.07
14201082--14201161	35	2.2	37	86	8	112	32	36	3	27	1.75
14201539--14201595	26	2.1	27	84	9	73	75	5	17	1	1.07
14201566--14201604	20	2.0	20	84	0	51	76	5	15	2	1.06
14201540--14201607	26	2.7	25	78	19	70	73	5	19	1	1.11
14204546--14204608	13	4.9	14	71	23	50	33	36	1	28	1.67
14204570--14204627	11	5.1	11	76	19	57	34	36	3	25	1.73
14204548--14204627	35	2.2	37	88	4	119	33	37	2	26	1.70
14205005--14205061	26	2.1	27	87	9	82	77	5	15	1	1.03
14205032--14205070	20	2.0	20	84	0	51	76	5	15	2	1.06
14205019--14205062	14	3.3	13	81	9	54	77	4	15	2	1.04
14205013--14205072	26	2.3	25	86	13	77	76	5	16	1	1.04
14208586--14208647	13	4.9	13	72	18	51	32	37	1	29	1.67
14208588--14208667	35	2.2	37	88	4	119	32	37	2	27	1.70
14213556--14213605	25	2.0	25	84	7	66	58	0	28	14	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14220013--14220117	36	2.9	36	88	1	158	31	34	3	30	1.76
14220016--14220100	11	7.2	11	73	22	66	32	34	2	30	1.71
14220485--14220527	6	7.2	6	79	10	52	79	0	16	4	0.90
14220485--14220525	19	2.3	17	87	8	55	80	0	14	4	0.87
14225695--14225798	36	2.9	36	88	1	147	31	33	2	31	1.73
14225716--14225781	13	5.5	11	75	22	62	34	33	1	30	1.67
14242379--14242428	24	2.1	24	100	0	100	32	16	28	24	1.96
14242450--14242491	19	2.2	19	91	0	66	50	7	9	33	1.62
14246949--14247007	23	2.6	23	88	0	91	62	11	16	8	1.52
14248218--14248260	23	1.9	21	81	13	50	32	18	13	34	1.90
14261177--14261204	12	2.3	12	100	0	56	46	28	7	17	1.75
14264252--14264305	1	54.0	1	81	0	54	0	3	7	88	0.61
14264252--14264305	12	4.4	12	82	13	74	0	3	7	88	0.61
14264245--14264305	20	3.2	19	80	19	74	0	4	8	86	0.69
14271148--14271186	14	2.7	14	92	4	60	84	7	7	0	0.77
14271147--14271186	15	2.7	15	84	11	55	85	7	7	0	0.76
14271142--14271191	25	2.1	23	85	7	64	86	8	6	0	0.72
14288704--14288760	10	5.5	10	79	8	69	0	5	8	85	0.72
14288704--14288760	11	5.4	11	77	6	64	0	5	8	85	0.72
14290729--14290788	28	2.1	29	81	3	68	58	15	13	13	1.64
14290772--14290817	5	9.6	5	88	6	69	80	2	17	0	0.81
14292026--14292068	23	1.9	21	81	13	50	32	18	13	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14295883--14295967	11	7.2	11	72	22	66	31	36	2	29	1.70
14295880--14295984	36	2.9	36	92	1	176	30	36	3	29	1.75
14296379--14296411	11	3.0	11	91	8	50	81	0	18	0	0.68
14296379--14296411	17	1.9	17	88	11	50	81	0	18	0	0.68
14301583--14301666	11	7.1	11	74	23	73	33	34	3	28	1.75
14301583--14301683	36	2.8	36	87	1	150	32	34	3	28	1.76
14304418--14304473	24	2.4	24	82	5	71	12	14	16	57	1.66
14304433--14304488	24	2.3	23	85	11	69	8	8	12	69	1.36
14315963--14316067	36	2.9	36	91	1	167	31	35	3	29	1.75
14315966--14316050	11	7.2	11	73	22	66	32	35	2	29	1.70
14316701--14316739	16	2.4	17	83	12	55	12	12	5	69	1.35
14317768--14317809	22	1.9	22	90	9	68	14	11	4	69	1.34
14318125--14318164	11	3.8	10	83	9	53	85	10	5	0	0.75
14318125--14318171	21	2.2	22	92	3	78	80	12	6	0	0.88
14323477--14323516	8	4.8	8	82	11	53	0	5	12	82	0.82
14329762--14329803	22	1.9	22	90	9	68	14	11	4	69	1.34
14332196--14332300	36	2.9	36	91	1	167	31	34	3	30	1.76
14345035--14345067	17	2.1	17	88	11	52	30	24	9	36	1.86
14345428--14345507	35	2.2	37	86	4	110	26	3	37	32	1.74
14348878--14348920	23	1.9	21	81	13	50	32	18	13	34	1.90
14351517--14351567	19	2.6	20	90	3	77	47	5	13	33	1.67
14355125--14355171	24	2.0	24	84	15	64	25	2	36	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14355125--14355204	35	2.2	37	86	4	110	28	2	36	32	1.71
14355520--14355570	19	2.6	20	87	3	68	45	5	15	33	1.71
14357659--14357683	8	3.1	8	100	0	50	0	24	0	76	0.80
14360574--14360628	24	2.3	24	75	9	60	67	10	14	7	1.41
14362039--14362090	21	2.6	21	90	6	81	34	13	5	46	1.67
14362511--14362550	19	2.0	20	86	13	57	22	10	0	67	1.20
14362840--14362864	8	3.1	8	100	0	50	76	0	24	0	0.80
14362808--14362878	13	5.6	12	76	15	54	76	2	18	2	1.04
14366113--14366153	21	2.0	20	90	9	66	36	9	4	48	1.58
14369080--14369109	13	2.4	13	94	5	53	43	0	30	26	1.55

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