genome.fa.s8242.2.7.7.80.10.50.1000.69.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  69  of  73  ( 8740 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)
15925692--15925726	5	6.6	5	87	12	52	42	2	0	54	1.15
15926168--15926215	21	2.2	23	89	10	75	41	0	0	58	0.98
15926343--15926437	16	5.8	17	71	14	65	38	1	1	58	1.12
15926336--15926490	41	4.1	38	68	18	99	41	2	1	53	1.25
15926344--15926455	23	4.5	25	69	20	65	40	0	1	57	1.15
15926349--15926437	23	3.7	23	75	10	88	38	1	1	59	1.12
15926395--15926443	15	3.3	14	81	13	53	38	0	0	61	0.96
15928079--15928240	65	2.5	63	82	3	207	27	17	25	29	1.97
15934555--15934597	20	2.2	20	83	8	52	37	4	2	55	1.33
15936537--15936602	18	3.6	18	72	9	62	30	18	22	28	1.97
15936543--15936626	38	2.2	38	87	4	116	32	16	21	29	1.95
15936583--15936719	65	2.1	64	79	12	156	28	17	23	30	1.97
15936621--15936667	19	2.5	19	83	10	62	25	17	31	25	1.97
15936986--15937015	14	2.1	14	93	0	51	36	30	13	20	1.90
15940306--15940345	2	20.0	2	100	0	80	50	0	0	50	1.00
15941354--15941394	16	2.6	16	88	0	64	17	9	41	31	1.82
15941425--15941504	21	3.9	21	80	6	83	8	23	35	32	1.86
15943895--15943946	22	2.2	25	83	10	65	53	1	1	42	1.23
15945384--15945430	23	2.0	23	100	0	94	36	21	17	25	1.94
15947447--15947750	53	5.8	53	81	4	287	25	25	18	31	1.97
15947502--15947751	106	2.4	104	87	2	342	24	25	19	31	1.98
15947497--15947750	53	4.9	52	85	3	289	24	25	18	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15948145--15948751	42	14.5	42	65	19	184	29	21	19	29	1.97
15948145--15948544	164	2.4	164	87	2	590	29	22	18	29	1.97
15948353--15948414	20	3.0	21	68	17	65	30	24	19	25	1.98
15948218--15948501	80	3.5	79	69	14	238	29	21	19	29	1.97
15948532--15948556	13	1.9	13	100	0	50	24	20	24	32	1.98
15948380--15948847	214	2.2	215	94	1	805	28	21	20	29	1.98
15948746--15948770	13	1.9	13	100	0	50	24	20	24	32	1.98
15955462--15955486	11	2.3	11	100	0	50	92	0	8	0	0.40
15957115--15957160	22	2.1	22	100	0	92	34	21	17	26	1.95
15959822--15960126	151	2.0	151	93	0	520	25	22	23	28	2.00
15964880--15965452	286	2.0	286	94	0	1002	30	22	15	31	1.95
15965831--15965972	69	2.1	66	89	5	212	33	25	11	28	1.91
15974509--15974542	11	3.1	11	84	16	52	41	2	0	55	1.15
15978220--15978259	13	3.2	13	80	20	50	37	5	10	47	1.59
15978239--15978263	13	1.9	13	100	0	50	28	8	16	48	1.74
15979068--15979167	31	3.2	32	77	7	98	29	31	25	15	1.95
15979078--15979182	31	3.4	30	76	7	93	31	30	21	16	1.95
15984978--15985137	64	2.5	63	85	6	198	36	15	16	31	1.90
15985732--15985804	22	3.3	22	88	1	101	26	20	20	32	1.97
15987340--15987393	17	2.9	19	71	20	60	48	31	14	5	1.67
15990348--15990416	7	10.0	7	74	3	68	20	1	34	43	1.61
15990340--15990396	27	2.1	27	90	6	89	24	0	29	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15990345--15990416	34	2.1	36	89	5	112	20	1	33	44	1.61
15992605--15992650	19	2.5	18	89	3	65	32	0	0	67	0.91
15999172--15999220	20	2.5	20	86	0	71	46	18	10	24	1.79
16000447--16000484	20	1.9	20	84	10	51	23	10	2	63	1.39
16006475--16006526	15	3.5	14	79	10	50	26	0	9	63	1.25
16006469--16006523	20	2.7	20	80	8	58	27	0	10	61	1.29
16006893--16006938	20	2.3	20	96	0	83	28	15	17	39	1.90
16012062--16012128	27	2.5	27	87	0	89	32	19	11	35	1.88
16012078--16012729	326	2.0	325	98	1	1270	30	16	17	36	1.91
16018832--16018989	21	7.6	21	83	7	196	29	22	22	25	1.99
16018848--16019009	83	2.0	83	94	0	288	30	20	22	26	1.98
16018832--16019008	62	2.8	63	75	16	197	30	22	22	25	1.99
16018849--16019029	83	2.2	83	87	2	274	29	20	22	26	1.99
16018849--16019050	83	2.4	83	85	3	246	29	21	22	26	1.99
16019018--16019095	41	1.9	41	86	5	113	24	20	21	33	1.97
16019772--16019852	21	3.9	21	76	19	80	32	20	23	23	1.98
16021069--16021106	2	19.0	2	94	0	67	52	0	0	47	1.00
16022884--16023273	106	3.7	106	93	0	665	23	17	26	32	1.96
16023147--16023415	143	1.9	142	92	2	459	23	17	25	33	1.97
16022935--16023624	354	1.9	355	92	1	1170	23	17	25	33	1.96
16023041--16023521	248	1.9	249	94	1	858	23	17	25	33	1.97
16023290--16024021	106	6.9	106	89	1	1078	23	18	24	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16022884--16023733	460	1.8	461	96	0	1594	23	17	25	33	1.96
16027240--16027284	19	2.4	19	96	3	83	68	8	11	11	1.39
16027894--16027926	17	1.9	17	93	0	57	72	9	12	6	1.26
16029019--16029045	13	2.1	13	100	0	54	62	0	7	29	1.22
16029039--16029087	2	25.0	2	95	4	91	48	0	0	51	1.00
16033576--16033609	17	2.0	17	94	0	59	38	11	5	44	1.65
16033618--16033691	38	1.9	38	91	0	121	27	14	35	22	1.94
16033618--16033691	19	3.9	19	89	0	103	27	14	35	22	1.94
16034860--16035488	84	7.5	84	83	4	768	31	16	21	30	1.95
16034860--16035488	252	2.5	252	86	4	867	31	16	21	30	1.95
16036328--16036362	18	1.9	18	100	0	70	22	5	2	68	1.24
16037770--16037794	12	2.1	12	100	0	50	0	24	0	76	0.80
16040866--16040902	17	2.2	17	86	13	51	54	0	8	37	1.30
16041818--16042304	229	2.1	228	94	0	857	44	8	7	40	1.62
16042583--16042629	20	2.4	19	89	10	76	55	10	17	17	1.69
16042371--16042840	180	2.6	181	89	2	669	42	14	17	26	1.87
16045042--16045105	21	3.0	21	79	0	74	39	14	29	17	1.88
16045140--16045205	33	2.0	33	90	0	105	28	0	48	22	1.51
16046956--16047004	19	2.6	19	93	0	80	30	2	10	57	1.43
16047113--16048272	199	5.8	199	96	0	2115	36	15	16	31	1.89
16047113--16048272	397	2.9	398	96	0	2133	36	15	16	31	1.89
16049738--16049796	12	4.9	11	80	12	55	38	8	33	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16049735--16049826	18	5.5	17	75	10	75	39	6	33	20	1.79
16049750--16049830	6	13.5	6	82	0	81	37	4	34	23	1.77
16049738--16049826	21	4.0	23	78	10	78	38	6	33	21	1.80
16049746--16049830	12	7.1	12	87	0	98	36	5	34	23	1.79
16049750--16049830	9	9.0	9	77	0	81	37	4	34	23	1.77
16051291--16051776	183	2.7	182	94	1	828	34	14	16	34	1.89
16054249--16054313	25	2.6	25	80	0	85	35	9	13	41	1.77
16054656--16054728	23	3.2	23	88	0	101	34	4	21	39	1.73
16055152--16055188	18	2.1	18	89	0	56	32	5	10	51	1.60
16055144--16055190	24	2.0	24	86	0	67	34	4	14	46	1.64
16055447--16055533	39	2.2	39	91	0	147	48	19	13	18	1.81
16055892--16055937	22	2.1	22	83	0	56	43	8	6	41	1.61
16055955--16056027	23	3.2	23	86	0	92	34	5	20	39	1.76
16057354--16057400	23	2.0	24	83	4	60	31	6	0	61	1.21
16059664--16059703	2	20.0	2	100	0	80	50	0	0	50	1.00
16061631--16062049	143	2.9	141	85	4	540	36	16	11	35	1.85
16080799--16080843	20	2.2	20	84	7	56	13	22	0	64	1.28
16084005--16084053	23	2.1	23	85	7	64	26	2	14	57	1.48
16086080--16086135	24	2.3	24	96	0	103	19	14	21	44	1.86
16088609--16088670	25	2.5	25	97	0	115	30	35	0	33	1.58
16090387--16090468	23	3.7	22	81	9	87	20	24	31	23	1.98
16090387--16090468	22	3.7	22	79	9	87	20	24	31	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16094312--16094526	116	1.8	117	81	6	267	27	14	8	48	1.74
16096908--16096955	20	2.4	20	96	0	87	29	16	20	33	1.95
16098720--16098781	8	8.1	8	70	22	53	45	0	9	45	1.36
16098727--16098773	14	3.8	14	69	30	52	46	0	8	44	1.33
16098720--16098789	22	3.1	23	91	6	117	45	0	8	45	1.34
16098805--16098871	31	2.2	29	82	10	80	34	1	8	55	1.40
16098868--16098989	14	9.5	14	72	16	77	47	2	4	45	1.35
16098690--16098904	114	1.9	114	82	12	273	40	1	7	49	1.43
16098874--16099029	38	4.2	37	85	4	183	46	3	6	44	1.45
16098891--16099003	35	3.2	33	75	18	93	46	2	5	46	1.39

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