genome.fa.s9639.2.7.7.80.10.50.1000.52.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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  52  of  62  ( 7398 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)
12241408--12241468	13	4.5	12	74	22	50	1	18	3	77	0.99
12241411--12241474	29	2.2	29	78	15	71	1	17	3	78	0.96
12241796--12241828	13	2.5	13	85	14	50	24	0	39	36	1.56
12246358--12246533	91	1.9	91	89	0	271	21	27	21	30	1.98
12247300--12247481	90	2.0	91	89	1	276	27	23	28	21	1.99
12250651--12250696	23	2.0	23	87	4	67	10	15	17	56	1.67
12251474--12251655	90	2.0	91	89	1	276	27	23	28	21	1.99
12254549--12254591	23	1.9	21	81	13	50	32	18	13	34	1.90
12256418--12256594	91	1.9	91	89	0	273	19	25	23	30	1.98
12260611--12260649	19	2.1	19	90	0	60	38	12	7	41	1.72
12261189--12262086	465	1.9	461	91	4	1448	36	12	24	26	1.91
12269105--12269156	19	2.6	21	90	6	81	46	7	13	32	1.72
12278418--12278476	19	2.9	19	78	12	64	3	15	3	77	1.02
12278406--12278480	34	2.3	32	84	10	100	5	13	5	76	1.14
12279176--12279229	19	2.7	20	85	8	74	44	7	12	35	1.71
12300805--12300859	24	2.3	25	81	6	60	29	21	16	32	1.95
12305494--12305526	10	3.3	10	91	0	57	30	9	27	33	1.88
12307776--12307806	5	6.2	5	92	0	53	77	3	19	0	0.90
12312296--12312346	24	2.1	24	92	0	84	58	13	13	13	1.63
12315214--12315258	21	2.1	21	91	0	72	77	6	4	11	1.09
12315248--12315300	24	2.3	23	83	6	70	58	15	13	13	1.64
12327373--12327409	15	2.4	16	90	4	58	70	5	10	13	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12329694--12329744	19	2.6	20	90	3	77	43	5	15	35	1.71
12333144--12333199	13	4.7	11	74	21	51	0	19	1	78	0.84
12333144--12333199	18	3.1	18	82	17	71	0	19	1	78	0.84
12333912--12333962	19	2.6	20	90	3	77	43	5	15	35	1.71
12337361--12337416	13	4.7	11	74	21	51	0	19	1	78	0.84
12337361--12337416	18	3.1	18	82	17	71	0	19	1	78	0.84
12338126--12338176	19	2.6	20	90	3	77	43	5	15	35	1.71
12342385--12342421	15	2.4	16	90	4	58	70	5	10	13	1.32
12350769--12350836	35	1.9	36	93	3	120	30	36	2	29	1.72
12353215--12353262	19	2.5	19	100	0	96	31	20	20	27	1.98
12375097--12375146	19	2.5	20	87	3	66	44	6	16	34	1.72
12378532--12378584	5	10.8	5	76	11	56	0	22	0	77	0.77
12378533--12378584	9	5.9	9	82	13	72	0	23	0	76	0.78
12379299--12379350	19	2.6	20	87	6	70	42	5	15	36	1.71
12395158--12395193	11	3.3	11	92	0	54	2	2	8	86	0.77
12408362--12408393	9	3.4	9	91	8	55	0	9	18	71	1.12
12408362--12408394	10	3.4	10	95	4	59	0	9	18	72	1.10
12412781--12412823	23	1.9	21	81	13	50	34	13	18	32	1.90
12414017--12414052	15	2.5	15	90	4	56	0	16	5	77	0.94
12414040--12414097	28	2.1	27	83	3	71	8	13	15	62	1.54
12427238--12427297	13	4.6	12	80	15	66	1	20	3	75	1.04
12427253--12427304	17	2.9	18	81	18	65	1	19	5	73	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12427244--12427295	27	1.9	27	88	7	79	1	19	3	75	1.06
12437629--12437670	14	3.1	14	79	3	50	0	11	14	73	1.09
12437862--12437895	16	2.1	16	89	10	52	64	0	23	11	1.26
12448974--12449288	157	2.0	156	95	4	573	32	20	18	28	1.96
12455670--12455712	23	1.9	21	81	13	50	34	13	18	32	1.90
12457595--12457634	20	1.9	22	85	10	57	40	12	30	17	1.86
12461304--12461343	20	1.9	22	85	10	57	40	12	30	17	1.86
12462998--12463179	90	2.0	91	88	1	267	27	23	28	20	1.99
12466216--12466258	22	2.0	22	85	0	59	11	13	13	60	1.59
12467023--12467195	90	1.9	91	91	1	285	28	24	26	20	1.99
12470540--12470721	90	2.0	91	89	1	276	20	27	23	28	1.99
12477684--12477739	27	2.1	25	83	9	67	58	16	16	8	1.61
12482746--12482927	90	2.0	91	88	1	267	21	28	22	27	1.99
12486622--12486664	23	1.9	21	81	13	50	34	13	18	32	1.90
12496055--12496104	19	2.6	20	84	12	61	64	0	12	24	1.27
12496524--12496575	19	2.6	21	84	6	72	46	5	13	34	1.67
12499528--12499587	25	2.4	25	81	10	68	5	15	5	75	1.15
12499844--12499893	19	2.6	20	84	12	61	64	0	12	24	1.27
12503787--12503841	23	2.3	25	84	6	78	60	12	18	9	1.58
12507845--12507895	19	2.6	20	90	3	77	43	5	15	35	1.71
12511623--12511664	18	2.3	18	92	8	68	78	11	9	0	0.96
12511623--12511664	17	2.4	17	92	4	66	78	11	9	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12519442--12519521	11	6.7	11	73	24	65	27	1	37	33	1.65
12519442--12519521	24	3.4	22	76	22	65	27	1	37	33	1.65
12519442--12519521	35	2.2	37	91	4	128	27	1	37	33	1.65
12519462--12519523	13	4.9	13	74	18	51	29	1	37	32	1.67
12523509--12523551	17	2.5	17	82	17	54	0	13	6	79	0.93
12523929--12523975	11	4.1	11	80	20	60	25	2	36	36	1.68
12523929--12523975	24	2.0	24	84	15	64	25	2	36	36	1.68
12523929--12524008	35	2.2	37	86	4	110	28	2	36	32	1.71
12525432--12525519	35	2.5	36	86	1	124	30	35	3	30	1.74
12525895--12525927	17	1.9	17	88	11	50	81	0	15	3	0.80
12529300--12529346	20	2.4	20	89	3	69	34	8	6	51	1.58
12534218--12534261	6	7.2	6	79	5	52	2	18	2	77	0.98
12534552--12534604	16	3.2	16	77	17	56	66	0	18	15	1.26
12534797--12534832	13	2.8	12	88	12	54	0	11	2	86	0.68
12538538--12538563	5	5.2	5	100	0	52	80	0	19	0	0.71
12539707--12539757	25	2.0	25	84	0	66	37	11	15	35	1.84
12543243--12543341	13	8.3	11	71	24	67	29	3	37	30	1.72
12543226--12543341	36	3.2	36	93	1	198	29	3	37	30	1.74
12548389--12548438	21	2.4	20	80	6	55	78	6	14	2	1.03
12553761--12554221	230	2.0	230	96	0	850	25	23	12	39	1.89
12554276--12554314	20	2.0	20	85	10	53	79	5	15	0	0.90
12554540--12554583	12	3.7	12	93	6	72	6	25	0	68	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12560986--12561057	11	6.2	11	70	27	51	31	34	4	29	1.77
12561022--12561074	22	2.3	23	90	3	81	32	33	3	30	1.76
12560983--12561054	36	2.0	36	97	0	135	30	34	5	29	1.80
12561669--12561728	30	2.0	31	83	3	77	26	8	10	55	1.61
12562568--12562618	20	2.6	20	90	3	77	35	15	5	43	1.71
12563396--12563460	13	5.4	12	75	21	57	29	3	35	32	1.73
12563378--12563479	36	2.9	36	95	1	179	28	3	36	31	1.75
12565839--12565877	6	6.2	6	85	8	51	0	23	0	76	0.78
12569073--12569102	13	2.4	13	94	5	53	26	30	0	43	1.55
12571865--12571920	28	2.1	25	83	9	67	8	16	16	58	1.61
12572715--12572883	90	1.8	93	84	3	236	32	23	23	21	1.98
12574560--12574732	90	1.9	91	89	1	267	28	23	26	21	1.99
12578110--12578165	28	2.1	25	83	9	67	8	14	16	60	1.57
12578950--12579131	90	2.0	91	86	1	258	27	21	28	22	1.99
12590403--12590432	13	2.4	12	94	5	51	43	0	30	26	1.55
12596471--12596509	12	3.6	12	80	19	50	17	43	7	30	1.77
12598027--12598069	23	1.9	21	81	13	50	34	13	18	32	1.90
12599326--12599385	23	2.6	23	78	7	68	8	16	8	66	1.42
12599333--12599385	23	2.2	24	86	3	72	9	15	9	66	1.45
12603405--12603464	24	2.6	23	81	7	77	8	18	10	63	1.50
12603412--12603464	23	2.2	24	90	3	81	9	16	11	62	1.54
12606838--12606878	15	2.8	15	78	14	50	2	14	2	80	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12607232--12607300	33	2.1	33	83	5	86	31	1	36	30	1.67
12607286--12607382	13	8.0	12	72	22	62	28	3	37	30	1.73
12607271--12607383	36	3.2	36	92	1	174	27	3	36	32	1.74
12610778--12610834	20	3.0	18	76	23	55	1	19	3	75	1.04
12610870--12610894	11	2.3	11	100	0	50	0	16	8	76	1.02
12614838--12614887	5	9.8	5	79	16	50	2	18	2	78	0.95
12614845--12614885	8	5.2	8	82	5	57	2	19	2	75	1.03
12614838--12614904	17	3.8	18	74	20	61	1	17	2	77	0.97
12614835--12614904	18	3.8	19	74	25	71	1	18	2	77	0.97
12617550--12617737	36	5.2	36	93	1	306	30	35	4	29	1.77

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