genome.fa.s1465.2.7.7.80.10.50.1000.35.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  35  of  55  ( 6520 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)
6938741--6938820	36	2.2	36	86	2	106	48	8	12	30	1.71
6938741--6938847	36	2.9	36	79	10	94	43	9	14	31	1.78
6938884--6939427	90	6.0	90	93	0	892	35	21	17	25	1.95
6939438--6939549	54	2.1	54	89	5	172	43	15	10	30	1.80
6941440--6941488	13	3.9	13	78	7	57	4	12	0	83	0.77
6941428--6941508	9	8.4	9	77	14	74	7	11	0	81	0.87
6941463--6941513	10	5.1	10	88	9	61	5	11	1	80	0.97
6941762--6941805	2	22.0	2	100	0	88	50	0	0	50	1.00
6953240--6953287	21	2.3	22	80	20	59	8	25	0	66	1.19
6956831--6956890	30	2.0	30	83	6	77	30	20	28	21	1.98
6965123--6965169	23	2.0	23	100	0	94	21	34	36	8	1.84
6966580--6966905	138	2.4	136	78	8	338	29	14	14	40	1.86
6969868--6969988	62	2.0	62	98	0	233	36	16	14	32	1.90
6975903--6976065	64	2.6	65	83	5	181	25	19	21	33	1.97
6979225--6979442	103	2.1	103	98	0	418	36	25	13	24	1.92
6979891--6980018	64	2.0	67	89	7	201	26	18	19	35	1.95
6979903--6980060	64	2.5	63	81	5	174	26	19	17	36	1.94
6983778--6983813	18	2.0	18	88	0	54	27	33	13	25	1.94
6984435--6984555	64	1.9	64	86	3	172	25	15	21	37	1.93
6985462--6985495	18	1.9	18	94	5	61	17	11	8	61	1.54
6989466--6989504	8	4.6	8	87	12	60	79	10	0	10	0.94
6989465--6989504	18	2.2	18	100	0	80	80	10	0	10	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6989465--6989497	10	3.5	10	88	12	52	81	9	0	9	0.87
6989500--6989551	17	3.0	17	83	13	70	84	0	15	0	0.62
6989509--6989551	7	6.0	7	83	5	50	86	0	13	0	0.58
6989501--6989551	22	2.2	23	86	10	68	84	0	15	0	0.63
6989500--6989548	14	3.6	13	83	10	55	83	0	16	0	0.64
6990759--6990796	19	2.0	19	89	0	58	65	5	10	18	1.41
6990888--6990946	23	2.5	24	77	22	72	54	18	3	23	1.59
6990893--6990946	22	2.3	23	82	14	67	53	18	1	25	1.54
6990874--6990947	24	3.2	23	77	14	80	50	22	2	24	1.62
6992539--6992644	23	4.7	23	80	4	110	30	14	26	29	1.95
6992540--6992644	46	2.3	44	85	9	133	30	13	26	29	1.94
7004670--7004698	3	10.0	3	92	7	51	0	34	0	65	0.93
7022284--7022403	27	4.5	26	73	19	88	72	0	18	9	1.10
7022352--7022401	18	2.9	17	77	11	57	72	0	20	8	1.10
7023688--7023793	37	2.9	37	81	4	117	36	18	20	23	1.95
7023732--7023802	36	1.9	37	86	8	101	35	16	22	25	1.95
7023813--7024232	55	7.7	54	85	3	463	26	17	25	30	1.97
7023813--7024232	110	3.9	109	84	3	519	26	17	25	30	1.97
7023813--7024232	165	2.6	164	84	5	523	26	17	25	30	1.97
7027789--7027818	2	15.5	2	93	6	53	50	0	0	50	1.00
7031708--7032776	535	2.0	533	97	0	2012	33	14	17	35	1.89
7034195--7034264	34	2.1	34	100	0	140	30	2	31	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7035273--7035349	37	2.1	37	85	4	102	48	1	3	46	1.28
7035489--7035532	20	2.3	19	81	11	54	22	27	4	45	1.72
7038164--7038228	33	2.0	33	96	0	121	30	20	12	36	1.89
7038711--7038747	19	1.9	19	88	0	56	35	0	5	59	1.20
7043615--7043655	13	3.5	13	75	25	54	24	26	26	21	2.00
7043601--7043667	22	3.0	22	93	2	107	25	28	25	20	1.99
7045378--7045420	21	2.0	21	86	0	59	16	27	27	27	1.97
7048318--7048370	12	3.9	13	76	23	56	58	13	0	28	1.35
7049161--7049208	20	2.5	19	78	21	64	35	2	0	62	1.07
7050241--7050333	46	2.0	46	93	4	161	32	12	11	43	1.80
7057994--7058032	20	2.0	20	89	0	60	33	10	23	33	1.88
7064802--7064844	21	2.0	22	86	13	63	51	0	20	27	1.48
7064973--7064999	3	9.0	3	100	0	54	33	0	0	66	0.92
7069288--7069348	24	2.6	24	89	2	97	26	8	16	49	1.73
7070225--7070291	23	2.9	23	86	0	89	32	26	16	23	1.96
7070418--7070456	14	2.8	14	92	0	60	33	15	12	38	1.85
7076420--7076506	46	1.9	45	81	4	104	29	29	17	22	1.97
7076453--7076506	23	2.3	23	93	0	90	31	29	16	22	1.96
7078362--7078534	62	2.8	62	89	0	256	46	12	10	30	1.76
7078447--7078476	13	2.2	14	94	5	53	50	13	6	30	1.67
7078389--7078493	20	5.1	21	68	16	67	47	11	10	30	1.73
7080368--7080522	30	5.2	30	73	12	120	22	16	20	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7081250--7081277	2	14.0	2	100	0	56	50	0	0	50	1.00
7082196--7082269	37	1.9	38	86	5	105	17	12	22	47	1.81
7084211--7084241	15	2.1	15	93	0	53	45	0	0	54	0.99
7084844--7084882	18	2.2	18	95	0	69	43	0	41	15	1.46
7085643--7085677	17	2.1	17	100	0	70	28	25	11	34	1.91
7087018--7087125	45	2.4	45	82	4	128	44	9	9	37	1.69
7089598--7089670	36	2.0	37	86	5	105	47	4	1	46	1.30
7095193--7095258	19	3.4	18	72	15	60	21	12	1	65	1.34
7095081--7095605	158	3.3	157	91	2	797	28	18	5	47	1.70
7095851--7095890	2	20.0	2	100	0	80	50	0	0	50	1.00
7096526--7096576	14	3.7	14	75	12	52	15	9	9	64	1.48
7101574--7101669	48	2.0	49	95	2	176	36	14	10	38	1.81
7106348--7106375	3	9.3	3	100	0	56	67	32	0	0	0.91
7107160--7107202	15	2.8	16	82	10	54	58	2	0	39	1.11
7107917--7108073	65	2.4	65	87	5	221	27	17	22	31	1.97
7107917--7108114	65	3.1	64	78	11	208	26	17	23	32	1.97
7113294--7113323	2	15.0	2	100	0	60	50	0	0	50	1.00
7113807--7113838	2	16.0	2	100	0	64	50	0	0	50	1.00
7115199--7115326	3	43.0	3	83	10	165	64	0	1	32	1.08
7115199--7115326	25	4.8	28	81	12	153	64	0	1	32	1.08
7115680--7116248	113	5.0	113	85	4	671	26	18	15	38	1.91
7116865--7117019	54	2.9	54	87	0	204	27	21	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7117898--7118066	75	2.3	74	85	4	214	32	21	14	31	1.93
7126078--7126111	18	2.0	17	88	11	52	70	0	0	29	0.87
7126495--7126520	2	13.0	2	100	0	52	50	0	0	50	1.00
7127628--7127714	3	30.0	3	82	11	110	65	1	1	32	1.07
7128405--7128433	15	1.9	15	100	0	58	41	3	13	41	1.62
7130482--7130587	45	2.3	46	87	4	144	31	16	21	30	1.96
7130634--7130671	20	1.9	20	94	0	67	18	15	34	31	1.92
7133054--7133140	40	2.2	40	93	0	147	20	9	10	59	1.57
7135002--7135128	55	2.3	55	90	4	195	27	16	22	33	1.96
7135002--7135153	55	2.8	54	82	8	141	27	15	23	33	1.95
7135439--7135464	13	2.0	13	100	0	52	30	0	7	61	1.24
7135483--7135507	13	1.9	13	100	0	50	24	0	24	52	1.48
7135692--7135740	21	2.3	21	89	0	71	24	12	28	34	1.91
7135702--7135813	21	5.2	21	73	14	61	25	19	23	32	1.98
7141908--7142034	55	2.3	55	89	4	195	26	17	22	33	1.96
7141913--7142085	55	3.2	53	85	6	172	26	17	23	33	1.96
7142631--7142672	21	2.0	21	85	0	57	21	19	28	30	1.97
7143678--7143709	2	16.0	2	100	0	64	50	0	0	50	1.00
7148364--7148405	22	1.9	22	90	0	66	42	14	2	40	1.58
7153516--7153559	23	2.0	21	91	8	70	27	29	0	43	1.55
7155652--7155718	33	2.1	32	88	2	98	49	10	20	19	1.77
7163910--7163948	15	2.6	15	95	0	69	33	20	0	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7164938--7164997	31	1.9	31	93	0	102	40	6	10	43	1.64
7165461--7165522	18	3.2	20	78	19	62	61	0	1	37	1.06
7165533--7165620	19	4.4	19	72	20	56	59	1	0	39	1.05
7165570--7165622	12	4.3	12	77	17	56	66	1	0	32	1.03
7167831--7167870	20	2.0	21	95	5	73	32	30	15	22	1.94
7167860--7167901	21	2.0	21	95	0	75	23	26	23	26	2.00
7168726--7168795	30	2.3	30	92	0	113	31	24	7	37	1.82
7172618--7172655	20	1.9	20	94	0	67	34	18	23	23	1.96
7177475--7177534	20	2.7	22	87	10	79	33	18	21	26	1.96
7179745--7180103	41	8.7	41	83	4	427	28	20	17	33	1.96

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