genome.fa.s9634.2.7.7.80.10.50.1000.69.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  69  of  78  ( 9351 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)
14156449--14156525	31	2.5	31	77	8	84	12	25	29	31	1.93
14159736--14159798	31	2.1	30	85	8	83	22	17	23	36	1.95
14179715--14179742	3	9.3	3	100	0	56	0	32	0	67	0.91
14180586--14180691	54	1.9	55	85	9	146	23	9	17	49	1.76
14180586--14180691	18	5.8	18	80	10	126	23	9	17	49	1.76
14180624--14180740	19	6.3	19	79	1	94	29	9	18	42	1.82
14181545--14181732	36	5.2	36	82	0	196	32	10	19	36	1.86
14182622--14182725	9	12.2	8	70	19	52	42	0	0	57	0.98
14182622--14182726	23	4.6	25	66	25	70	42	0	0	57	0.99
14182628--14182725	34	2.9	34	89	0	160	41	0	0	58	0.98
14184227--14184268	2	21.5	2	95	4	77	50	0	0	50	1.00
14186551--14186594	19	2.3	18	84	7	52	31	6	2	59	1.36
14192052--14192143	22	4.2	21	76	17	71	72	1	22	3	1.05
14192051--14192155	44	2.4	44	82	7	131	72	0	22	3	1.07
14192063--14192155	22	4.2	21	85	8	114	70	1	24	3	1.08
14192154--14192198	3	15.0	3	100	0	90	33	0	66	0	0.92
14193984--14194213	64	3.6	63	79	6	212	26	17	26	29	1.97
14194112--14194162	19	2.7	19	85	8	70	25	15	35	23	1.94
14194006--14194213	65	3.2	64	79	13	221	27	16	25	30	1.97
14202608--14202837	64	3.6	63	80	6	221	26	17	26	29	1.98
14202736--14202786	19	2.7	19	85	8	70	25	15	35	23	1.94
14202630--14202837	65	3.2	64	81	13	230	27	17	25	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14203339--14203491	38	3.9	38	82	3	153	27	14	16	41	1.88
14203412--14204028	45	13.8	45	81	3	609	23	16	19	41	1.90
14204585--14205009	134	3.2	133	85	2	541	30	18	19	32	1.95
14210068--14210141	38	1.9	39	83	8	98	18	10	2	67	1.32
14211969--14212089	59	2.1	59	87	3	172	26	15	19	38	1.92
14219144--14219195	22	2.3	23	83	6	72	30	0	17	51	1.45
14236250--14236296	21	2.2	21	100	0	94	44	29	0	25	1.54
14237774--14237811	18	2.0	21	85	15	55	31	34	2	31	1.72
14244367--14244452	33	2.6	33	94	0	154	24	18	15	41	1.89
14246179--14246237	31	1.9	31	96	0	109	40	30	3	25	1.72
14246398--14246446	2	25.0	2	95	4	91	51	0	0	48	1.00
14246480--14246554	29	2.5	30	80	6	89	32	13	9	45	1.75
14251895--14251969	28	2.7	28	82	0	87	36	20	6	37	1.79
14252368--14252464	33	3.0	33	93	1	160	27	16	14	41	1.87
14252458--14252518	29	2.1	29	87	0	86	39	21	4	34	1.75
14253321--14253366	21	2.1	21	84	4	56	28	17	6	47	1.72
14253431--14253496	29	2.2	30	84	12	84	36	24	6	33	1.80
14253431--14253496	30	2.2	30	86	7	91	36	24	6	33	1.80
14258467--14259056	163	3.6	162	82	3	657	27	21	15	35	1.93
14259313--14259553	102	2.3	101	81	7	279	38	12	15	34	1.84
14261651--14261788	20	6.7	20	75	20	115	2	18	1	78	0.93
14261656--14261794	32	4.4	32	77	17	109	2	18	1	77	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14261651--14261769	23	5.2	24	79	9	74	2	18	0	78	0.92
14261651--14261790	54	2.6	51	82	17	153	2	17	1	78	0.92
14261651--14261789	12	13.3	11	71	22	104	2	17	1	78	0.93
14261651--14261790	19	7.4	18	74	21	119	2	17	1	78	0.92
14263226--14263287	22	2.6	23	82	12	72	62	1	20	14	1.39
14267950--14268276	175	1.9	174	92	0	546	24	33	13	29	1.93
14272419--14272491	34	2.1	35	84	2	94	45	16	0	38	1.48
14272488--14272564	35	2.2	35	88	4	111	33	0	22	44	1.53
14279873--14279931	31	1.9	31	96	0	109	42	3	8	45	1.51
14279950--14280648	22	33.6	22	78	11	701	47	10	0	41	1.39
14279950--14280648	43	16.8	44	83	10	701	47	10	0	41	1.39
14283575--14284142	59	10.1	58	79	11	592	27	23	11	37	1.90
14283750--14284130	52	7.0	52	77	11	379	26	24	12	36	1.91
14283633--14284133	165	3.0	165	86	4	627	26	23	12	37	1.90
14283626--14284142	276	1.8	278	89	4	808	26	23	11	37	1.90
14283575--14284142	111	5.0	111	83	7	575	27	23	11	37	1.90
14289668--14289716	19	2.6	19	87	9	66	28	18	28	24	1.98
14289688--14289889	65	3.1	63	77	14	198	26	18	23	31	1.97
14290937--14290980	21	2.1	21	82	0	52	31	15	43	9	1.79
14298355--14298403	19	2.7	17	81	9	53	30	18	28	22	1.97
14298375--14298584	65	3.3	63	77	11	203	27	18	24	30	1.98
14301250--14301304	26	2.1	26	93	0	92	23	14	27	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14305062--14305096	18	1.9	18	100	0	70	40	11	14	34	1.82
14305311--14305363	22	2.5	22	93	3	90	30	11	9	49	1.70
14306297--14306372	39	1.9	39	86	0	107	32	22	26	18	1.97
14306337--14306492	44	3.5	44	77	6	138	32	22	24	20	1.98
14312198--14312273	39	1.9	39	89	0	116	34	22	23	19	1.97
14312266--14312414	44	3.4	43	85	4	199	31	22	25	20	1.98
14313141--14313178	20	1.9	20	94	0	67	31	34	15	18	1.92
14313206--14313258	20	2.7	20	91	2	81	33	30	16	18	1.94
14319068--14319148	24	3.5	24	70	20	75	22	24	23	29	1.99
14319069--14319171	44	2.3	44	82	9	138	22	26	22	29	1.99
14321868--14321905	20	1.9	20	94	0	67	31	34	15	18	1.92
14321933--14321985	20	2.7	20	91	2	81	33	30	16	18	1.94
14324222--14324260	17	2.4	16	82	4	51	69	5	2	23	1.21
14324386--14324419	7	4.9	7	100	0	68	58	0	0	41	0.98
14328551--14328622	3	24.0	3	88	5	110	33	1	1	63	1.11
14329939--14329997	16	3.8	16	78	14	61	30	5	1	62	1.26
14329991--14330062	20	3.4	21	77	17	78	26	2	2	68	1.17
14330016--14330060	12	3.8	12	88	2	56	28	2	2	66	1.15
14329945--14330054	12	7.8	13	67	25	55	28	4	2	64	1.27
14329991--14330060	24	3.2	23	78	13	76	27	2	2	67	1.19
14330077--14330124	2	24.0	2	100	0	96	50	0	0	50	1.00
14330137--14330532	148	2.6	149	82	6	460	39	8	8	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14330290--14330568	148	1.9	147	81	5	336	38	7	7	45	1.62
14336683--14336712	15	1.9	16	93	6	53	46	13	6	33	1.69
14336966--14337016	23	2.2	23	82	0	57	45	3	0	50	1.20
14337004--14337082	19	4.3	19	73	9	67	48	1	1	49	1.17
14337043--14337122	27	3.0	27	75	15	85	50	2	0	47	1.14
14337022--14337128	16	7.5	15	70	18	61	48	1	0	49	1.12
14337087--14337178	22	4.2	22	68	9	55	51	1	1	46	1.15
14338446--14338474	3	9.7	3	100	0	58	31	0	0	68	0.89
14340018--14340048	13	2.5	13	94	5	55	54	6	6	32	1.51
14343680--14343774	21	4.6	21	85	7	140	48	30	1	20	1.56
14343680--14343778	7	14.3	7	76	2	92	47	31	1	20	1.57
14343856--14343885	14	2.1	14	93	0	51	43	0	6	50	1.28
14356960--14357018	28	2.2	26	87	6	82	57	1	1	38	1.19
14357235--14357269	2	17.5	2	100	0	70	51	0	0	48	1.00
14364720--14364773	27	2.0	27	96	0	99	25	24	14	35	1.94
14366192--14366253	3	21.0	3	78	15	67	30	3	0	66	1.08
14366188--14366252	11	6.3	10	80	18	71	29	3	0	67	1.05
14366190--14366243	16	3.1	18	82	17	78	27	1	0	70	0.98
14366192--14366253	22	2.6	24	80	15	83	30	3	0	66	1.08
14366192--14366247	23	2.4	23	85	11	78	30	1	0	67	1.01
14366191--14366247	19	2.8	20	86	10	71	29	1	0	68	1.00
14367477--14367538	32	1.9	33	87	9	92	37	3	0	59	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14367472--14367544	17	4.3	16	74	13	58	34	2	0	63	1.09
14373846--14373876	12	2.6	12	94	0	53	19	22	9	48	1.78
14376262--14376316	22	2.5	22	90	0	83	36	12	14	36	1.84
14376696--14377238	113	4.7	112	83	9	610	38	15	19	26	1.91
14376908--14377238	124	2.7	123	90	1	513	39	15	19	25	1.91
14376696--14377238	235	2.3	226	82	10	625	38	15	19	26	1.91
14377234--14377355	63	1.9	63	89	0	190	39	22	6	31	1.79
14377370--14377427	20	2.9	21	70	19	61	51	10	17	20	1.74
14377667--14377739	3	25.0	3	81	13	82	27	0	2	69	1.02
14378256--14378293	18	2.1	18	95	0	67	52	10	26	10	1.68

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