genome.fa.s8356.2.7.7.80.10.50.1000.46.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  46  of  56  ( 6656 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)
10480498--10480555	24	2.4	24	83	13	75	43	1	3	51	1.28
10481463--10481514	27	1.9	27	84	0	68	21	11	11	55	1.66
10483393--10483425	17	1.9	17	100	0	66	81	6	12	0	0.85
10484470--10484536	33	2.1	33	91	2	109	32	19	17	29	1.95
10484833--10484908	36	2.1	35	83	7	91	36	17	10	35	1.84
10484839--10484922	36	2.3	36	79	0	87	40	15	10	33	1.82
10485146--10485326	92	2.0	92	89	4	276	30	12	13	43	1.81
10485165--10485326	29	5.4	29	74	13	141	31	11	13	43	1.80
10485964--10485996	3	11.0	3	93	0	57	36	0	0	63	0.95
10485964--10486000	12	3.1	12	96	0	65	37	0	0	62	0.96
10486129--10486174	16	2.6	18	74	16	51	28	34	23	13	1.92
10487476--10487617	27	5.0	28	71	18	98	16	14	10	58	1.63
10487492--10487653	59	2.8	56	76	12	141	17	13	10	58	1.62
10494687--10494737	26	2.0	26	96	0	93	35	7	41	15	1.76
10495296--10495325	14	2.1	14	100	0	60	50	30	13	6	1.67
10501648--10501725	26	2.9	26	77	17	70	35	0	7	56	1.28
10504192--10504252	28	2.2	28	90	0	95	39	11	16	32	1.84
10519425--10519472	22	2.2	22	92	0	78	47	14	2	35	1.56
10521460--10522083	54	11.6	54	80	4	618	36	15	14	32	1.88
10521458--10521998	162	3.4	162	84	4	689	36	15	15	32	1.89
10537221--10537259	20	2.0	20	84	0	51	23	25	2	48	1.63
10539438--10539486	19	2.5	20	80	6	55	22	8	12	57	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10551219--10551282	28	2.3	28	81	5	85	34	34	10	20	1.88
10552712--10552817	42	2.5	42	81	1	133	24	20	25	29	1.99
10552975--10553056	42	2.0	42	83	9	105	26	18	23	31	1.97
10553024--10553093	20	3.5	20	70	3	59	35	21	14	28	1.92
10552644--10553176	263	2.0	263	89	0	805	28	20	21	29	1.98
10554327--10554375	19	2.5	20	80	6	55	22	12	8	57	1.61
10556195--10556246	24	2.2	24	82	3	61	38	9	0	51	1.35
10557552--10557604	21	2.5	22	84	6	74	22	24	20	32	1.98
10557590--10557644	20	2.8	19	86	8	74	36	18	21	23	1.95
10557613--10557712	20	5.0	20	86	0	128	29	26	17	28	1.97
10564219--10564243	12	2.1	12	100	0	50	40	8	16	36	1.77
10564822--10564873	26	2.0	26	100	0	104	30	30	3	34	1.76
10567277--10567319	18	2.5	18	81	7	54	25	0	2	72	0.97
10578692--10578807	41	2.8	41	85	5	144	32	18	20	28	1.96
10578821--10579127	164	1.9	164	84	4	422	31	17	19	31	1.95
10578818--10579137	83	3.9	83	83	2	387	31	17	19	31	1.95
10578997--10579122	41	3.0	41	70	14	114	31	15	21	31	1.94
10580314--10580400	45	1.9	45	97	0	165	33	21	9	35	1.85
10580632--10580706	38	2.0	38	91	0	123	34	16	9	40	1.80
10580636--10580721	38	2.3	38	83	0	100	38	13	9	38	1.78
10581346--10581385	21	1.9	21	89	0	62	15	42	0	42	1.46
10585140--10585181	21	2.0	21	86	9	59	38	28	11	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10585175--10585243	23	3.0	23	77	8	77	30	20	30	18	1.97
10592477--10592526	20	2.5	20	90	0	82	26	12	24	38	1.90
10595692--10595732	6	6.7	6	94	5	73	0	17	0	82	0.66
10595692--10595732	19	2.2	18	95	4	73	0	17	0	82	0.66
10595924--10595966	21	2.0	23	86	9	63	58	0	20	20	1.40
10600073--10600105	2	17.0	2	93	6	59	51	0	0	48	1.00
10607271--10607296	13	2.0	13	100	0	52	46	23	0	30	1.53
10607967--10608010	22	2.0	23	81	4	54	47	4	2	45	1.35
10608011--10608083	24	3.0	24	72	16	71	53	9	0	36	1.34
10613734--10613767	18	1.9	17	94	5	59	41	0	0	58	0.98
10614370--10614814	55	8.1	55	85	1	534	34	17	16	31	1.92
10617373--10617424	20	2.5	22	81	6	63	28	13	23	34	1.92
10629636--10629708	36	2.0	36	94	0	128	39	6	23	30	1.81
10631475--10631579	24	4.4	24	88	0	147	23	20	20	35	1.96
10631490--10631574	12	7.0	13	67	14	65	22	20	22	35	1.96
10633665--10633710	18	2.6	18	85	0	65	17	52	17	13	1.75
10633679--10633724	23	2.0	23	82	0	56	21	52	13	13	1.73
10636050--10636159	48	2.3	48	87	3	159	25	18	20	35	1.95
10636050--10636159	24	4.6	24	83	3	141	25	18	20	35	1.95
10636364--10636422	2	29.5	2	100	0	118	49	0	0	50	1.00
10638478--10638528	21	2.4	21	83	0	66	31	37	5	25	1.80
10638489--10638536	21	2.3	21	96	0	87	29	37	10	22	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10638704--10638777	34	2.2	34	92	0	121	43	8	12	36	1.72
10642637--10642704	33	2.1	33	85	0	91	23	30	13	32	1.93
10643064--10643102	20	2.0	20	89	0	60	28	17	30	23	1.97
10643088--10643118	16	1.9	16	93	0	53	29	16	22	32	1.95
10643067--10643138	20	3.8	20	72	20	57	27	16	27	27	1.97
10643460--10643517	18	3.0	19	80	14	82	50	10	12	27	1.72
10646416--10646515	52	1.9	52	89	4	157	33	14	22	31	1.93
10646435--10646515	16	4.8	16	82	11	99	34	13	19	32	1.91
10646450--10646530	36	2.2	36	91	0	135	35	13	19	30	1.91
10646607--10646655	20	2.5	20	86	0	62	30	8	30	30	1.86
10647810--10647959	40	3.8	40	88	0	201	24	20	25	30	1.98
10652103--10652136	12	2.8	12	86	0	50	76	0	5	17	0.98
10654921--10655095	40	4.4	40	82	3	219	23	20	26	30	1.98
10657600--10657632	11	3.0	11	90	0	57	30	18	0	51	1.46
10670679--10671061	54	7.1	54	90	1	579	34	19	16	29	1.94
10671050--10671103	18	3.0	18	77	0	63	35	16	20	27	1.94
10671136--10671172	2	18.5	2	94	0	65	48	0	2	48	1.15
10672259--10672299	17	2.2	20	87	12	61	24	0	2	73	0.96
10676678--10676728	20	2.5	21	84	9	70	31	15	23	29	1.95
10677837--10678073	72	3.3	70	82	7	273	40	4	5	48	1.48
10677945--10678072	35	3.6	37	76	16	135	43	3	5	46	1.45
10678999--10679025	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10679058--10679085	2	14.0	2	100	0	56	50	0	0	50	1.00
10678973--10679084	59	1.9	59	100	0	224	35	8	3	51	1.51
10682083--10682131	25	2.0	25	88	8	73	79	10	4	6	1.03
10682190--10682228	16	2.3	16	82	8	51	58	5	0	35	1.20
10683232--10683271	20	2.1	19	86	13	55	80	0	5	15	0.88
10685622--10685673	16	3.3	16	91	2	79	13	5	9	71	1.30
10689412--10689466	21	2.7	20	75	16	51	72	0	20	7	1.07
10689409--10689511	26	4.0	26	70	20	65	72	0	19	7	1.08
10689474--10689620	7	19.3	7	74	20	93	76	0	20	2	0.90
10689475--10689616	5	27.4	5	72	17	60	76	0	20	2	0.91
10689474--10689618	23	5.9	23	74	16	96	76	0	20	2	0.91
10689496--10689574	30	2.5	33	78	10	85	78	0	17	3	0.90
10689518--10689620	13	7.4	13	68	24	50	76	0	22	0	0.84
10689521--10689618	41	2.5	40	79	14	116	76	0	22	1	0.85
10689475--10689582	30	3.7	29	74	15	80	78	0	17	3	0.89
10689473--10689618	76	1.9	77	83	6	190	76	0	21	2	0.92
10692049--10692096	15	3.6	13	76	23	55	33	2	2	62	1.18
10694025--10694062	15	2.6	15	84	15	53	60	0	28	10	1.30
10694080--10694119	21	1.9	21	89	0	62	30	0	12	57	1.36
10694100--10694159	28	2.1	28	90	0	93	31	0	10	58	1.31
10694130--10694234	45	2.4	45	93	3	178	39	0	10	50	1.37
10694227--10694275	23	2.1	23	88	0	71	26	2	14	57	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10694170--10694307	74	1.9	73	90	1	222	33	0	13	52	1.46
10698805--10698922	60	2.0	60	86	3	166	22	26	17	33	1.96
10700579--10700607	10	3.0	10	95	5	51	51	0	0	48	1.00
10700634--10700745	48	2.3	49	89	4	165	48	11	1	38	1.50
10700729--10700771	20	2.3	18	88	8	59	55	13	0	30	1.39
10700819--10700890	11	6.8	11	69	13	53	0	38	1	59	1.06
10700828--10700889	20	3.2	20	88	2	90	0	38	1	59	1.07
10700843--10700905	15	3.9	15	73	18	54	1	39	1	57	1.18
10700863--10700906	15	2.9	15	89	0	70	2	36	2	59	1.23
10701219--10701321	30	3.4	30	83	0	134	24	22	32	21	1.98

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