genome.fa.s9462.2.7.7.80.10.50.1000.68.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   90   91   

This is table  68  of  91  ( 10815 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)
15287664--15287741	30	2.6	30	91	0	120	25	19	23	32	1.98
15288042--15288069	2	14.0	2	100	0	56	50	0	0	50	1.00
15290421--15290448	2	14.0	2	100	0	56	50	0	0	50	1.00
15292696--15292755	26	2.3	26	97	0	111	25	3	23	48	1.66
15293031--15293122	30	3.0	30	87	1	112	22	20	23	32	1.98
15293058--15293130	30	2.4	30	93	0	119	26	20	23	30	1.99
15294122--15294155	5	7.0	5	86	6	52	20	2	0	76	0.92
15295961--15295993	5	6.8	5	86	6	50	36	0	0	63	0.95
15297323--15297381	31	1.9	31	82	6	75	33	3	10	52	1.52
15304777--15304819	19	2.3	19	100	0	86	25	23	0	51	1.49
15306106--15306477	141	2.6	141	85	3	516	33	15	13	37	1.86
15306100--15306519	141	3.0	137	74	13	397	32	14	14	38	1.87
15316753--15316786	11	2.9	12	86	8	52	17	8	35	38	1.81
15317027--15317052	6	4.3	6	100	0	52	38	0	46	15	1.46
15317667--15317882	75	2.9	74	92	1	351	35	14	11	37	1.83
15318980--15319011	13	2.3	15	89	10	50	37	0	0	62	0.95
15326767--15326829	33	1.9	33	96	0	117	53	17	4	23	1.62
15327006--15327200	37	5.6	35	64	15	100	44	14	13	27	1.82
15327046--15327232	31	5.6	31	67	15	106	47	13	13	26	1.79
15326917--15327250	68	5.0	68	84	5	437	46	12	12	28	1.79
15328416--15328444	15	1.9	15	100	0	58	27	0	41	31	1.56
15332029--15332082	22	2.7	20	74	8	56	27	16	24	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15331973--15332180	96	2.2	95	82	6	242	28	14	26	30	1.95
15332140--15332197	22	2.8	22	92	7	95	31	13	27	27	1.94
15332608--15333042	45	9.7	45	89	1	586	39	10	20	29	1.85
15333760--15333821	2	31.0	2	100	0	124	50	0	0	50	1.00
15337503--15337678	65	2.7	63	81	10	185	28	25	18	27	1.98
15343466--15343545	23	3.6	23	75	13	94	25	22	25	27	2.00
15346189--15346364	65	2.7	64	80	6	185	28	26	18	26	1.98
15346331--15346404	20	3.7	20	96	0	130	24	36	21	17	1.95
15348465--15348659	65	3.0	65	100	0	390	26	35	7	30	1.84
15349809--15349839	2	15.0	2	93	6	53	48	3	0	48	1.17
15349873--15349906	12	2.8	12	95	0	59	35	29	8	26	1.87
15356461--15356556	35	2.8	34	76	9	88	41	1	0	57	1.06
15358259--15358338	42	1.9	42	81	0	97	21	32	23	22	1.98
15358334--15358374	21	2.0	21	95	0	73	21	31	19	26	1.97
15358334--15358386	21	2.5	21	87	6	72	22	30	20	26	1.98
15358921--15358986	34	1.9	34	96	0	123	53	6	4	36	1.46
15359198--15359360	23	7.6	23	64	20	77	36	20	1	41	1.61
15359176--15359366	63	3.0	63	94	0	337	37	23	1	38	1.62
15359496--15360346	127	6.7	126	83	8	966	33	21	22	22	1.97
15359496--15360215	248	2.8	249	86	7	939	33	21	22	22	1.97
15359964--15360238	138	2.0	138	91	1	444	32	22	21	23	1.98
15368002--15368079	29	2.6	30	90	8	124	32	14	23	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15370353--15370568	54	4.0	55	90	3	334	36	20	17	25	1.94
15371280--15371376	21	4.5	23	77	12	107	32	26	20	19	1.97
15371280--15371373	23	4.4	20	75	14	73	32	26	20	20	1.97
15373712--15373957	54	4.6	54	84	3	280	39	16	14	29	1.88
15373802--15373941	27	5.2	27	65	17	76	40	19	15	25	1.90
15373692--15373991	108	2.8	107	80	6	329	39	18	15	28	1.90
15384793--15384827	12	2.8	12	91	4	52	37	11	5	45	1.64
15385728--15385772	22	2.0	22	95	0	81	31	22	24	22	1.99
15390977--15391556	85	6.8	85	87	1	718	34	20	17	27	1.95
15390977--15391556	169	3.4	169	85	2	734	34	20	17	27	1.95
15390977--15391556	254	2.3	254	84	3	745	34	20	17	27	1.95
15392434--15392661	67	3.5	66	85	4	275	29	17	21	30	1.97
15393170--15393195	2	13.0	2	100	0	52	50	0	0	50	1.00
15395367--15395448	23	3.6	22	76	14	71	25	24	25	24	2.00
15401231--15401410	66	2.8	63	77	16	190	28	18	23	30	1.98
15401252--15401410	66	2.5	65	84	7	200	28	18	22	31	1.97
15402327--15402682	37	10.0	37	80	13	333	44	3	6	44	1.47
15402347--15402590	73	3.3	73	88	5	332	45	4	5	44	1.46
15402338--15402687	110	3.3	106	79	15	350	45	3	6	45	1.45
15402562--15402616	24	2.2	25	83	9	76	50	3	1	43	1.30
15402568--15402615	24	2.0	24	91	0	78	50	0	2	47	1.12
15402519--15402645	61	2.1	61	88	7	186	45	3	3	47	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15402582--15402695	37	3.2	35	75	8	97	42	3	4	50	1.39
15404325--15404493	3	55.0	3	69	15	78	59	3	2	33	1.29
15404301--15404361	29	2.2	29	82	5	72	57	1	1	39	1.18
15405659--15405926	85	3.1	84	79	4	268	27	20	19	33	1.96
15407204--15407242	3	13.0	3	86	10	53	69	2	0	28	1.02
15407202--15407242	11	3.7	11	83	9	57	70	2	0	26	0.99
15414366--15414446	19	4.3	19	72	20	64	48	1	1	49	1.17
15414489--15414582	28	3.2	28	73	10	89	47	1	1	50	1.15
15414523--15414606	31	2.6	32	80	12	84	48	1	2	47	1.22
15414553--15414596	22	2.0	23	86	4	63	54	0	2	43	1.12
15414558--15414630	22	3.2	22	74	14	58	52	0	1	46	1.09
15414557--15414630	25	3.2	23	75	15	64	52	0	1	45	1.09
15414565--15414632	25	2.6	25	84	13	77	50	0	1	48	1.10
15426281--15426444	65	2.5	64	83	1	211	28	15	25	31	1.96
15426395--15426441	19	2.5	19	83	10	62	25	17	31	25	1.97
15429333--15429391	26	2.3	26	84	0	82	42	5	3	49	1.41
15429347--15429401	25	2.2	26	83	3	67	36	7	5	50	1.53
15431647--15431809	90	1.8	88	94	2	290	44	6	11	38	1.66
15435208--15435246	2	19.5	2	100	0	78	48	0	0	51	1.00
15435419--15435452	2	17.0	2	100	0	68	50	0	0	50	1.00
15435837--15435876	16	2.4	17	91	4	64	70	12	0	17	1.18
15439858--15439902	22	2.0	24	86	8	67	48	2	4	44	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15449026--15449131	50	2.3	46	84	11	128	53	11	1	33	1.47
15451040--15451077	12	3.1	13	77	14	53	47	0	0	52	1.00
15451040--15451087	24	2.0	24	88	8	71	45	0	2	52	1.12
15451193--15451293	42	2.6	38	75	14	98	46	0	0	51	1.14
15451316--15451363	20	2.4	19	80	10	51	41	0	0	58	0.98
15451333--15451385	16	3.3	17	78	21	53	37	0	1	60	1.08
15451615--15451659	18	2.4	19	88	7	65	60	0	0	40	0.97
15455664--15455731	18	3.4	18	69	21	55	32	20	4	42	1.72
15455643--15455740	42	2.3	43	87	8	139	35	22	3	38	1.70
15455989--15456129	21	6.9	21	87	2	198	28	29	19	22	1.98
15456660--15456684	2	12.5	2	100	0	50	48	0	0	52	1.00
15461929--15462296	56	6.6	56	94	0	630	34	19	11	34	1.88
15462637--15462677	19	2.2	19	90	0	64	29	17	14	39	1.89
15465803--15465845	13	3.2	12	84	15	50	48	6	9	34	1.62
15465803--15465845	14	3.2	13	87	9	52	48	6	9	34	1.62
15466329--15466399	23	3.2	22	71	15	65	28	21	23	26	1.99
15466324--15466426	44	2.3	44	90	3	163	27	20	24	28	1.99
15466304--15466428	21	5.8	20	66	22	51	26	19	25	28	1.98
15474062--15474374	56	5.6	56	88	0	448	36	18	10	34	1.85
15477387--15477435	22	2.2	22	92	0	80	22	22	12	42	1.86
15480766--15481300	56	9.6	56	91	1	851	35	18	11	34	1.86
15484348--15484577	123	1.9	123	80	5	268	30	16	15	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15484348--15484639	41	7.1	40	78	3	235	30	17	15	36	1.90
15486741--15486795	21	2.6	21	94	0	92	45	9	40	5	1.59
15488831--15488940	52	2.1	53	89	1	168	24	20	17	37	1.94
15493500--15493586	42	2.1	42	95	0	156	50	14	12	21	1.76
15493508--15493576	22	3.2	22	64	15	54	49	14	13	23	1.78
15494226--15494263	3	12.3	3	94	5	67	31	0	0	68	0.90
15494228--15494275	22	2.2	22	88	7	71	33	0	2	64	1.05
15497783--15497855	33	2.2	33	100	0	146	27	9	27	35	1.88
15499190--15499267	26	3.2	25	67	22	76	24	23	10	42	1.85
15499205--15499279	20	3.5	20	72	20	71	26	24	10	38	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   79   80   
          81   82   83   84   85   86   87   88   89   90   91