genome.fa.s1129.2.7.7.80.10.50.1000.36.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   

This is table  36  of  89  ( 10573 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)
7739036--7739069	14	2.4	14	95	0	59	17	20	0	61	1.34
7739174--7739251	32	2.5	32	83	4	97	39	7	25	26	1.83
7746922--7746949	2	14.0	2	100	0	56	50	0	0	50	1.00
7749796--7749835	20	2.0	21	85	5	55	30	17	7	45	1.76
7750000--7750095	45	2.1	45	94	0	174	33	14	22	29	1.94
7750405--7750458	22	2.5	23	80	14	62	35	14	18	31	1.91
7757334--7757374	21	2.0	21	85	0	55	41	7	21	29	1.80
7763055--7763101	18	2.6	18	89	3	67	25	8	0	65	1.20
7771320--7771362	18	2.4	18	84	7	52	23	9	2	65	1.34
7774610--7774635	11	2.4	11	100	0	52	46	15	19	19	1.85
7778130--7778237	35	3.1	35	83	4	137	29	35	3	31	1.75
7778750--7779007	18	14.3	18	87	0	327	18	27	28	25	1.98
7782558--7782595	20	1.9	20	88	0	58	34	18	21	26	1.96
7783387--7783481	18	5.3	18	84	0	118	17	26	28	27	1.98
7807599--7807656	20	2.7	20	81	10	62	32	18	20	27	1.97
7808130--7808169	2	20.0	2	100	0	80	50	0	0	50	1.00
7809590--7809701	35	3.2	35	81	1	125	27	34	3	33	1.74
7815246--7815353	35	3.1	35	83	4	137	28	35	3	32	1.75
7815866--7816105	18	13.3	18	85	0	282	18	26	28	26	1.98
7819647--7819684	20	1.9	20	88	0	58	34	18	21	26	1.96
7820476--7820570	18	5.3	18	88	0	136	17	28	28	25	1.98
7824110--7824166	20	2.7	20	81	10	60	35	19	21	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7824641--7824688	2	24.0	2	100	0	96	50	0	0	50	1.00
7825002--7825063	18	3.4	18	77	0	70	16	27	30	25	1.96
7825037--7825071	18	1.9	18	88	11	54	25	25	28	20	1.99
7828439--7828463	2	12.5	2	100	0	50	48	0	0	52	1.00
7828914--7829006	23	4.0	24	88	5	131	23	20	24	31	1.98
7828926--7829019	23	4.2	22	89	2	109	24	20	25	29	1.99
7828916--7829033	23	5.3	22	82	10	93	24	18	25	31	1.98
7833632--7833670	3	13.0	3	100	0	78	33	0	0	66	0.92
7838531--7838556	10	2.6	10	100	0	52	15	30	0	53	1.42
7838601--7838645	23	2.0	22	83	12	56	31	0	2	66	1.04
7838615--7838653	18	2.2	18	95	4	71	33	0	2	64	1.08
7844244--7844413	78	2.2	78	95	0	304	16	29	14	39	1.88
7844422--7844585	90	1.8	90	95	0	301	17	32	11	38	1.86
7850931--7851055	28	4.5	27	87	6	178	16	8	32	44	1.76
7851603--7851650	16	2.8	18	90	6	73	29	31	6	33	1.82
7856342--7856396	20	2.8	20	91	2	85	36	12	5	45	1.66
7856877--7856907	14	2.2	14	94	0	53	6	16	0	77	0.97
7857378--7857438	21	2.7	23	80	12	72	34	29	18	18	1.94
7863098--7863156	21	2.7	22	76	5	66	25	32	15	27	1.95
7863147--7863202	23	2.6	21	74	5	58	25	23	19	32	1.98
7863821--7863869	12	4.1	12	83	0	62	32	51	2	14	1.54
7869285--7869317	17	1.9	17	93	0	57	30	24	12	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7873735--7873770	18	2.0	18	88	0	54	27	30	19	22	1.98
7877575--7877602	2	14.0	2	100	0	56	50	0	0	50	1.00
7884819--7884927	23	4.7	23	82	5	121	35	22	23	18	1.95
7884817--7884927	46	2.4	47	84	1	143	35	23	23	18	1.96
7887663--7887704	6	7.5	6	89	10	63	0	19	0	80	0.70
7887667--7887702	5	6.8	5	87	12	54	0	16	0	83	0.65
7887667--7887702	11	3.4	11	96	3	65	0	16	0	83	0.65
7902213--7902249	2	18.5	2	100	0	74	48	0	0	51	1.00
7907454--7907691	106	2.2	105	86	5	311	21	26	15	36	1.93
7907668--7908167	116	4.3	116	81	3	513	24	21	14	39	1.91
7908670--7908748	42	1.9	42	84	2	106	34	24	20	21	1.97
7908963--7909165	102	2.0	102	83	6	257	38	19	8	33	1.82
7917823--7917891	12	5.8	12	72	6	59	53	18	11	15	1.72
7917823--7917891	24	2.9	24	82	0	84	53	18	11	15	1.72
7917819--7917912	48	2.0	48	85	8	129	51	17	12	19	1.77
7930067--7930126	2	29.5	2	96	3	111	50	1	0	48	1.11
7930459--7930572	23	5.0	23	82	4	140	30	25	25	18	1.98
7930464--7930582	46	2.6	46	84	6	161	32	23	25	18	1.97
7942320--7942357	9	4.2	9	87	9	51	47	0	0	52	1.00
7943938--7943987	6	8.8	6	82	8	52	2	16	0	82	0.77
7946677--7946751	32	2.3	32	97	0	141	26	21	14	37	1.92
7948463--7948524	22	2.8	21	79	11	61	54	1	1	41	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7948509--7948577	23	3.0	23	70	8	59	68	4	0	27	1.09
7948767--7948822	25	2.2	25	87	0	76	39	8	14	37	1.77
7949369--7949394	13	2.0	13	100	0	52	30	38	15	15	1.88
7950275--7950323	15	3.3	14	80	5	53	32	2	14	51	1.54
7955435--7955490	3	20.3	3	73	23	52	28	0	0	71	0.86
7955430--7955490	13	4.9	13	90	6	92	27	0	0	72	0.85
7956571--7956641	23	3.2	22	79	15	58	26	4	0	69	1.07
7956572--7956644	22	3.2	23	83	9	71	27	4	0	68	1.07
7968179--7968423	73	3.4	73	87	1	330	34	25	16	23	1.95
7968257--7968383	32	3.7	33	69	25	100	33	29	15	22	1.95
7969012--7969060	6	7.8	6	82	8	53	20	4	0	75	0.96
7969012--7969067	19	2.9	19	79	12	62	19	5	0	75	1.00
7969013--7969060	13	3.8	13	78	10	55	20	4	0	75	0.97
7970119--7970242	27	4.2	31	77	13	100	28	4	0	66	1.11
7970150--7970240	9	9.9	9	75	13	69	25	4	0	70	1.06
7970151--7970242	27	3.3	27	90	6	132	26	4	0	69	1.07
7970173--7970240	5	15.2	4	83	8	55	25	2	0	72	0.99
7971279--7971328	19	2.6	19	100	0	100	30	18	30	22	1.97
7971317--7971374	20	2.7	21	76	10	55	25	20	25	27	1.99
7972883--7972943	23	2.6	24	89	7	99	16	26	26	31	1.96
7991748--7991911	83	2.0	84	83	6	208	34	20	15	29	1.94
7997321--7997364	6	7.7	6	87	7	65	31	52	15	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7997321--7997364	11	3.8	11	90	3	61	31	52	15	0	1.44
7997765--7997821	25	2.3	25	90	0	87	19	8	22	49	1.76
7998125--7998185	21	2.8	22	73	19	65	39	24	19	16	1.92
7998106--7998185	42	1.9	42	94	0	142	37	22	20	20	1.94
7998122--7998192	23	3.3	23	75	15	87	36	21	21	21	1.95
8004096--8004120	3	8.3	3	100	0	50	68	0	32	0	0.90
8004867--8004906	17	2.4	17	86	0	53	37	0	2	60	1.11
8006596--8006848	129	2.0	129	84	2	328	33	13	20	32	1.92
8012516--8012600	35	2.4	35	100	0	170	29	25	30	14	1.95
8015167--8015220	18	2.9	18	79	15	65	48	1	0	50	1.11
8015171--8015209	17	2.3	17	86	0	51	46	2	0	51	1.14
8015167--8015224	21	3.1	19	83	11	75	50	1	0	48	1.11
8018799--8019182	196	2.0	190	90	3	606	29	17	22	30	1.96
8019399--8019433	2	17.5	2	100	0	70	48	0	0	51	1.00
8020328--8020361	3	11.3	3	100	0	68	67	0	32	0	0.91
8027811--8027894	26	3.2	26	77	0	96	32	19	16	32	1.94
8027820--8027894	13	5.8	13	85	0	96	29	20	17	33	1.95
8027822--8027896	39	1.9	39	94	0	132	28	20	18	33	1.96
8028058--8028086	2	15.0	2	92	7	51	48	0	0	51	1.00
8034818--8034869	24	2.2	24	85	0	68	40	5	11	42	1.65
8038347--8038412	26	2.5	26	100	0	132	25	22	19	31	1.98
8038345--8038420	26	2.6	30	80	20	106	28	22	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8038657--8038685	2	14.5	2	100	0	58	48	0	0	51	1.00
8043590--8043643	27	2.0	26	86	10	74	24	14	29	31	1.95
8047907--8047933	14	1.9	14	100	0	54	40	29	14	14	1.86
8048726--8048855	51	2.5	51	88	0	206	32	19	17	30	1.95
8049926--8049957	15	2.1	15	100	0	64	28	9	18	43	1.81
8050487--8050543	25	2.3	25	96	0	105	12	14	29	43	1.81
8051899--8052020	64	1.9	63	86	5	174	55	12	0	31	1.37
8051934--8052072	19	7.2	19	67	21	58	56	11	0	31	1.35
8051954--8052096	76	1.9	75	85	5	198	57	11	0	30	1.39
8053658--8053689	16	2.0	16	100	0	64	6	18	12	62	1.50

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