genome.fa.s1129.2.7.7.80.10.50.1000.51.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  51  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)
11486778--11486818	20	2.1	19	86	4	55	26	14	9	48	1.75
11486511--11487082	200	2.9	199	82	3	715	30	15	14	39	1.87
11488415--11488626	106	2.0	106	87	1	309	22	15	15	46	1.83
11489212--11489270	31	1.9	31	92	0	100	23	25	8	42	1.82
11489614--11489646	16	2.1	16	94	0	57	0	9	6	84	0.76
11497582--11497909	68	4.8	68	88	0	458	30	13	23	31	1.93
11497867--11498076	80	2.6	81	87	1	296	36	10	22	30	1.89
11498963--11499106	77	1.9	77	92	0	243	31	21	5	40	1.76
11499315--11499343	11	2.5	12	94	5	51	62	10	6	20	1.50
11499641--11499676	15	2.4	15	100	0	72	41	19	11	27	1.85
11508753--11508813	22	2.9	21	81	13	72	31	18	27	22	1.97
11508753--11508813	21	2.9	20	80	17	70	31	18	27	22	1.97
11510080--11510249	90	1.9	88	92	2	286	44	6	10	38	1.65
11517415--11517706	59	4.9	59	91	1	442	32	12	21	33	1.91
11523563--11523732	83	2.0	83	94	0	295	34	5	23	37	1.78
11524480--11524886	59	6.9	59	89	0	609	34	12	20	32	1.89
11525993--11526071	24	3.2	24	74	13	63	41	6	1	50	1.36
11526033--11526092	27	2.2	27	81	0	75	40	3	1	55	1.27
11526233--11526299	31	2.2	31	91	0	107	49	14	5	29	1.68
11535701--11535993	147	2.0	146	93	0	496	36	13	12	37	1.83
11541193--11542316	81	13.9	81	85	1	1416	31	22	11	34	1.89
11547282--11547760	81	5.9	81	87	1	681	31	24	10	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11547924--11548058	57	2.4	57	93	1	227	34	17	10	37	1.84
11548485--11548537	20	2.7	20	80	11	63	24	32	13	30	1.93
11549843--11549869	7	3.9	7	100	0	54	59	0	11	29	1.32
11551076--11551149	31	2.5	31	82	4	89	40	8	21	29	1.82
11556903--11561001	958	4.3	958	91	1	6540	37	18	15	28	1.92
11561005--11568876	953	8.3	957	89	2	11873	36	18	16	28	1.92
11566743--11566827	31	2.7	31	77	1	89	28	28	27	16	1.97
11568657--11568733	31	2.4	32	77	10	86	33	25	22	18	1.96
11571321--11571409	31	2.8	31	84	1	115	30	26	23	19	1.98
11569629--11576364	958	7.1	958	86	4	8941	36	18	16	28	1.92
11576378--11592738	957	17.2	959	88	2	22972	36	18	16	28	1.92
11582444--11582535	31	2.9	32	77	4	105	30	28	23	17	1.97
11592379--11593110	372	2.0	372	89	1	1135	36	16	16	30	1.92
11593367--11596874	949	3.7	956	88	3	5080	36	17	16	29	1.92
11596942--11597028	31	2.8	31	75	8	86	32	22	26	18	1.97
11603217--11603253	2	18.5	2	100	0	74	51	0	0	48	1.00
11614128--11614192	18	3.9	17	75	19	66	18	41	21	18	1.90
11614182--11614215	15	2.3	15	94	0	59	17	35	23	23	1.95
11616735--11616796	12	5.2	12	78	7	72	12	14	17	54	1.70
11616693--11616801	24	4.5	24	79	2	105	20	14	17	47	1.82
11618090--11618150	18	3.4	18	74	0	68	37	19	3	39	1.68
11618369--11618427	21	2.8	21	81	0	73	42	20	13	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11619538--11619594	30	1.9	30	92	7	98	38	21	3	36	1.70
11625388--11625448	18	3.4	18	72	0	68	37	21	1	39	1.63
11625677--11625765	21	4.2	21	72	0	79	40	22	13	23	1.89
11626783--11626853	29	2.4	29	80	13	83	33	21	7	38	1.80
11626898--11626929	11	2.9	11	90	0	55	25	15	3	56	1.54
11632788--11633081	72	4.1	72	80	3	342	41	10	20	27	1.84
11632955--11633068	38	3.1	37	68	14	101	35	8	24	30	1.86
11632790--11633073	144	2.0	144	85	2	383	42	10	20	26	1.84
11633013--11633138	56	2.2	57	87	4	182	42	8	19	29	1.81
11632941--11633197	129	2.0	129	87	1	372	41	8	21	28	1.83
11637928--11637969	21	2.0	22	86	13	61	71	9	7	11	1.31
11643044--11643104	18	3.4	18	72	0	68	37	21	1	39	1.63
11643326--11643421	42	2.3	42	79	0	102	40	20	14	23	1.90
11643332--11643421	21	4.3	21	68	0	63	38	22	14	24	1.91
11644469--11644523	29	1.9	28	81	3	65	40	18	7	34	1.78
11651138--11651249	38	3.1	37	71	15	106	36	9	21	32	1.86
11651123--11651229	38	3.0	34	77	9	99	42	8	19	28	1.80
11650949--11651271	71	4.6	71	76	9	277	41	9	21	28	1.84
11651130--11651362	128	1.8	130	87	1	353	40	8	21	30	1.83
11651202--11651315	56	2.0	57	86	1	158	36	9	22	30	1.87
11651130--11651386	129	2.0	129	85	1	345	40	9	21	28	1.84
11654391--11654448	26	2.2	26	93	0	98	24	29	8	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11681684--11681731	22	2.3	21	82	13	55	35	20	18	25	1.95
11682059--11682290	52	4.4	52	83	6	279	33	22	18	26	1.96
11682053--11682290	106	2.2	106	86	4	329	33	22	18	26	1.96
11682059--11682290	54	4.4	54	85	4	303	33	22	18	26	1.96
11689586--11689617	15	2.1	15	100	0	64	25	6	18	50	1.70
11689669--11689951	54	5.3	54	82	6	326	34	16	18	30	1.93
11689688--11689951	106	2.5	105	86	4	352	34	16	18	30	1.93
11689696--11689996	108	2.8	106	84	4	295	34	17	17	30	1.93
11691123--11691166	17	2.6	17	92	0	79	31	38	0	29	1.58
11692280--11692731	229	2.0	229	91	3	743	40	16	8	34	1.79
11694937--11695011	3	25.7	3	82	15	95	32	1	0	66	1.00
11696540--11696597	20	2.8	20	84	2	71	32	1	0	65	1.03
11700482--11700513	15	2.1	15	94	0	55	25	18	9	46	1.79
11707697--11707744	10	4.6	10	87	10	69	87	0	10	2	0.62
11707693--11707744	22	2.5	22	90	6	81	84	0	13	1	0.70
11708078--11708132	19	2.8	19	83	10	58	34	12	3	49	1.59
11709272--11709603	173	1.9	173	84	4	438	36	15	19	28	1.92
11710079--11710140	3	20.7	3	80	12	74	38	0	0	61	0.96
11710647--11710686	18	2.2	18	100	0	80	22	15	17	45	1.85
11711053--11711092	16	2.4	17	83	8	55	27	0	0	72	0.85
11711054--11711098	13	3.4	13	84	12	56	31	0	0	68	0.89
11719592--11719637	24	1.9	24	86	0	65	19	17	15	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11719601--11719659	24	2.5	24	80	5	66	23	8	16	50	1.72
11740126--11740204	22	3.6	22	82	0	104	31	24	20	24	1.98
11746732--11746790	23	2.6	23	86	0	82	33	28	23	13	1.93
11755334--11755423	23	3.9	23	81	5	101	36	24	22	16	1.94
11757167--11757207	21	2.0	21	85	0	55	31	24	12	31	1.92
11760784--11760838	21	2.7	20	91	8	85	25	18	29	27	1.98
11761119--11761158	19	2.1	19	85	0	53	55	5	7	32	1.50
11761259--11761292	12	2.7	13	90	9	61	38	5	8	47	1.59
11763079--11763120	20	2.2	19	83	12	50	69	11	0	19	1.19
11763539--11763582	23	1.9	23	95	0	79	40	18	13	27	1.88
11763622--11763661	20	2.0	20	95	0	71	25	22	20	32	1.98
11766274--11766324	22	2.3	22	100	0	102	47	15	15	21	1.83
11769421--11769470	20	2.5	20	96	0	91	32	8	24	36	1.84
11771117--11771157	19	2.2	19	86	8	57	12	12	0	75	1.05
11771235--11771286	22	2.4	22	93	0	86	19	34	3	42	1.69
11773435--11773479	2	22.5	2	100	0	90	51	0	0	48	1.00
11775714--11775773	18	3.4	18	78	15	63	51	0	6	41	1.28
11775746--11775789	16	2.8	16	85	0	61	45	2	9	43	1.48
11775752--11775847	43	2.2	45	85	9	126	45	2	6	45	1.40
11775723--11775833	16	6.9	16	72	16	54	46	1	7	44	1.41
11775829--11775867	20	2.0	20	85	10	53	43	2	2	51	1.29
11780171--11780253	28	3.0	27	78	3	94	26	9	19	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11781432--11781468	13	2.6	14	87	12	58	70	0	24	5	1.08
11793060--11793107	21	2.3	21	82	7	53	20	22	18	37	1.94
11799375--11799562	93	2.0	93	100	0	376	37	21	9	31	1.86
11801949--11801977	12	2.5	12	94	5	51	65	0	27	6	1.18
11805221--11805267	4	11.8	4	95	0	85	51	21	0	27	1.48
11805293--11805369	22	3.5	22	71	7	75	33	18	19	28	1.95
11805389--11805463	24	3.2	24	73	7	91	40	22	6	30	1.80
11805388--11805479	46	2.0	46	100	0	184	39	21	6	32	1.79
11805401--11805478	24	3.3	24	75	7	97	38	20	6	34	1.78
11806148--11806228	18	4.4	19	73	20	73	33	13	20	32	1.92

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