genome.fa.s9462.2.7.7.80.10.50.1000.28.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  28  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)
5777271--5777346	14	5.4	14	87	0	107	30	22	26	21	1.99
5777271--5777346	28	2.7	28	93	0	125	30	22	26	21	1.99
5789259--5789309	23	2.3	22	86	3	66	21	15	19	43	1.88
5795822--5795877	20	2.8	19	78	7	58	73	1	10	14	1.18
5796494--5796672	85	2.1	85	86	2	243	30	21	17	30	1.96
5805456--5805490	15	2.2	16	90	5	54	8	0	8	82	0.83
5805495--5805602	55	1.9	56	89	9	168	48	0	8	43	1.33
5805592--5805672	25	3.7	23	75	22	84	49	0	7	43	1.30
5805551--5805666	43	2.8	41	92	4	178	48	0	6	44	1.29
5805576--5805734	65	2.4	65	80	13	175	48	1	7	42	1.39
5805706--5805752	20	2.4	20	86	10	62	51	4	10	34	1.56
5805676--5805734	27	2.2	27	82	11	68	52	1	6	38	1.38
5805656--5805752	42	2.2	42	80	10	104	51	3	8	37	1.48
5805746--5805814	35	1.9	37	82	11	90	47	0	10	42	1.37
5811142--5811181	19	2.2	18	86	4	53	25	20	5	50	1.68
5828311--5828387	41	1.9	40	86	2	109	33	12	19	33	1.90
5828622--5828681	2	31.5	2	88	9	90	46	0	0	53	1.00
5828667--5828744	24	3.3	23	85	7	95	48	0	3	47	1.20
5828670--5828727	21	2.6	22	86	5	82	43	0	3	53	1.17
5828739--5828798	24	2.5	24	83	0	84	43	0	10	46	1.37
5828832--5828872	20	2.0	20	86	9	57	48	4	12	34	1.62
5828797--5828860	32	2.0	32	82	8	78	51	1	7	39	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5831206--5831247	2	21.0	2	100	0	84	50	0	0	50	1.00
5831502--5831556	30	1.9	27	82	10	65	43	3	1	50	1.30
5832108--5832161	2	27.0	2	100	0	108	50	0	0	50	1.00
5838335--5838412	15	4.9	15	79	14	84	32	10	28	29	1.90
5838299--5838399	35	2.8	36	93	1	168	36	9	25	27	1.88
5838385--5838668	36	7.9	36	89	2	426	36	14	23	26	1.92
5838385--5838668	109	2.6	108	90	1	435	36	14	23	26	1.92
5838530--5838792	123	2.1	124	86	6	383	36	14	22	26	1.92
5838616--5838712	51	1.9	51	87	8	144	37	16	19	26	1.93
5838299--5839128	232	3.6	231	77	15	793	37	12	22	27	1.90
5838658--5839256	73	8.5	72	76	12	358	38	11	21	29	1.87
5838512--5838812	160	1.9	159	92	3	507	37	13	22	25	1.91
5838658--5839256	37	17.0	36	74	13	358	38	11	21	29	1.87
5838746--5838810	21	3.4	21	72	24	70	40	10	23	26	1.87
5838773--5839010	66	3.6	66	83	6	270	38	8	22	30	1.84
5838863--5838973	31	3.5	31	65	22	84	38	5	22	33	1.77
5838773--5839010	130	1.8	133	81	5	304	38	8	22	30	1.84
5839015--5839081	22	3.4	22	67	26	67	38	14	22	23	1.92
5839141--5839290	72	2.1	74	84	5	198	36	10	18	35	1.85
5839312--5839382	37	1.9	36	85	2	97	33	9	26	29	1.89
5839418--5839478	19	3.3	19	72	21	65	45	8	18	27	1.77
5839418--5839717	37	8.5	37	70	15	206	40	10	18	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5839426--5839484	18	3.0	21	72	23	74	40	6	18	33	1.77
5839313--5839699	103	3.8	103	93	0	666	40	9	19	31	1.83
5840864--5840914	10	5.0	10	81	13	59	0	21	0	78	0.75
5840875--5840957	15	5.3	15	71	13	53	1	19	0	79	0.80
5840865--5840961	6	15.8	6	73	16	56	1	20	0	78	0.81
5840887--5840961	15	5.8	12	77	18	64	1	17	0	81	0.76
5840896--5840979	29	2.9	28	84	8	100	4	17	0	77	0.94
5840907--5840979	29	2.4	29	88	4	101	5	19	0	75	0.99
5842276--5842329	28	1.9	28	88	0	81	46	16	16	20	1.84
5842308--5842340	16	2.1	15	94	5	57	60	12	15	12	1.59
5842304--5842351	7	6.9	7	80	15	55	54	12	16	16	1.72
5844859--5844915	30	1.9	30	82	10	73	73	7	7	12	1.23
5847206--5847272	27	2.5	27	100	0	134	35	26	0	37	1.57
5848708--5848764	28	2.0	28	96	0	105	31	14	19	35	1.91
5849100--5849163	2	32.0	2	100	0	128	50	0	0	50	1.00
5849776--5849889	60	1.9	59	87	7	160	35	21	4	38	1.73
5850670--5850704	18	1.9	18	94	0	61	25	37	20	17	1.94
5858050--5858092	20	2.2	20	83	8	52	20	23	20	34	1.96
5880960--5881150	45	4.2	45	85	3	249	42	9	19	28	1.83
5880960--5881172	45	4.7	45	81	5	207	42	9	18	28	1.82
5882512--5882766	45	5.6	45	84	2	296	29	20	10	39	1.86
5882693--5882845	79	1.9	79	84	5	202	28	24	10	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5883440--5883475	19	1.9	18	94	5	63	25	25	16	33	1.96
5889552--5889753	45	4.5	45	87	1	262	28	20	10	40	1.86
5890297--5890361	22	3.2	19	79	14	69	23	27	16	32	1.96
5890301--5890357	22	2.7	21	82	12	71	22	28	19	29	1.98
5891165--5891193	2	14.5	2	100	0	58	51	0	0	48	1.00
5893564--5893602	17	2.3	17	95	0	69	15	25	41	17	1.89
5895335--5895531	39	5.1	39	90	1	288	36	16	16	30	1.92
5895621--5895729	42	2.6	42	79	4	105	32	18	22	27	1.97
5895729--5895849	59	2.1	59	87	6	174	28	12	29	28	1.93
5898108--5898157	21	2.5	20	73	20	59	42	8	12	38	1.71
5900636--5900699	8	8.1	7	81	13	56	75	1	0	23	0.90
5900638--5900699	23	2.8	23	75	20	69	74	1	0	24	0.91
5900669--5900698	8	3.8	8	100	0	60	76	0	0	23	0.78
5901570--5901595	2	13.0	2	100	0	52	50	0	0	50	1.00
5902424--5902457	14	2.3	15	90	5	52	50	0	8	41	1.34
5904022--5904081	28	2.1	29	81	9	70	53	3	0	43	1.17
5904102--5904152	25	2.0	27	81	14	63	49	1	1	47	1.24
5905021--5905055	18	1.9	18	88	0	52	37	17	2	42	1.64
5906410--5906451	21	2.0	21	100	0	84	47	14	14	23	1.80
5906622--5906678	21	2.7	21	76	13	55	64	5	1	28	1.25
5906580--5906704	49	2.6	50	75	13	138	60	3	1	34	1.22
5906844--5906868	13	1.9	13	100	0	50	48	0	20	32	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5906978--5907035	3	19.3	3	100	0	116	34	0	0	65	0.93
5907947--5908204	109	2.4	109	83	7	312	20	15	19	44	1.86
5908866--5908915	20	2.5	20	80	3	66	38	8	18	36	1.80
5909676--5909709	15	2.2	16	89	5	52	47	0	20	32	1.51
5916203--5916279	2	38.5	2	92	5	129	49	1	1	48	1.17
5917172--5917319	80	1.9	77	82	9	183	40	8	5	45	1.58
5922855--5922906	20	2.6	20	90	0	86	40	32	15	11	1.83
5928244--5928291	22	2.2	22	85	7	62	33	2	0	64	1.05
5928888--5928932	24	2.0	22	86	8	63	77	2	17	2	0.97
5929780--5929880	36	2.9	36	89	2	152	23	9	9	56	1.62
5930976--5931058	21	4.0	21	92	4	132	16	27	34	20	1.94
5932429--5932476	20	2.4	20	85	0	60	31	10	6	52	1.60
5933746--5933835	21	4.0	21	70	20	74	14	24	42	18	1.88
5933793--5933831	20	2.0	20	94	0	69	17	25	41	15	1.89
5938565--5938632	2	35.5	2	91	8	115	48	0	0	51	1.00
5944595--5944635	18	2.3	18	87	4	57	75	0	21	2	0.92
5945651--5945738	32	2.8	32	87	0	122	27	14	25	32	1.95
5945895--5946065	61	2.8	61	86	6	229	35	19	15	29	1.93
5946375--5946482	34	3.3	34	73	15	118	35	23	15	25	1.94
5946410--5946520	30	3.5	30	71	16	98	34	24	17	24	1.96
5946372--5946536	64	2.5	66	88	1	235	35	24	16	24	1.95
5946762--5947506	84	9.0	84	84	4	931	34	21	18	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5946755--5947506	164	4.5	166	88	3	998	34	21	18	24	1.96
5947852--5947949	50	2.0	50	87	0	142	31	17	22	28	1.96
5950353--5950388	3	12.0	3	100	0	72	33	0	0	66	0.92
5950436--5950484	25	2.0	25	88	4	73	22	8	0	69	1.14
5961150--5961179	13	2.4	13	94	5	53	43	0	30	26	1.55
5968700--5968795	49	2.0	49	95	0	174	40	18	17	22	1.91
5973248--5973285	20	1.9	20	100	0	76	47	10	18	23	1.79
5973247--5973292	20	2.3	20	88	0	74	41	15	17	26	1.88
5990080--5990721	134	4.8	134	86	1	824	31	21	17	29	1.96
5990906--5990973	6	10.8	6	79	14	75	47	1	0	51	1.09

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