genome.fa.s9634.2.7.7.80.10.50.1000.61.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  61  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)
12333006--12333031	2	13.0	2	100	0	52	50	0	0	50	1.00
12333862--12333913	3	17.3	3	95	0	95	67	0	32	0	0.91
12346768--12346821	28	1.9	28	96	0	99	46	11	14	27	1.79
12346952--12346987	5	7.2	5	100	0	72	38	41	0	19	1.52
12349711--12350644	431	2.2	432	93	0	1584	50	8	10	29	1.67
12349712--12350644	216	4.3	215	94	0	1573	50	8	10	30	1.67
12350742--12351007	2	131.5	2	69	19	144	46	4	3	45	1.40
12350746--12350823	11	7.3	10	73	22	52	50	2	2	44	1.29
12351038--12351176	41	3.4	39	75	19	108	46	7	5	41	1.53
12351162--12351186	13	1.9	13	100	0	50	52	8	0	40	1.31
12351038--12351198	22	7.2	22	68	18	91	46	7	4	40	1.54
12351193--12351242	24	2.1	24	84	0	64	36	8	10	46	1.67
12351250--12351360	2	53.0	2	68	21	50	45	4	5	45	1.47
12351250--12351360	9	13.2	8	68	17	50	45	4	5	45	1.47
12351276--12351327	24	2.2	24	92	0	86	38	5	5	50	1.51
12351314--12351380	34	1.9	36	84	6	93	46	5	4	43	1.48
12351377--12351433	27	2.2	26	87	6	80	47	7	5	40	1.53
12351537--12351571	18	1.9	18	94	0	61	37	11	11	40	1.77
12351420--12351613	102	1.9	103	80	6	232	42	10	9	37	1.71
12351645--12351870	67	3.5	65	68	18	186	43	8	2	44	1.49
12351667--12351925	123	2.1	123	93	0	437	45	9	2	42	1.50
12351806--12351858	20	2.6	20	80	14	63	39	7	1	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12351797--12351856	27	2.2	27	90	0	93	40	8	1	50	1.43
12351915--12351986	27	2.7	27	78	4	74	43	6	2	47	1.45
12351955--12351989	15	2.4	14	95	4	61	45	5	0	48	1.26
12352071--12352114	18	2.3	19	88	7	63	40	6	6	45	1.57
12352111--12352331	33	6.5	35	85	7	278	42	7	6	43	1.57
12352141--12352273	18	7.6	18	71	13	116	44	6	6	42	1.55
12352111--12352306	106	1.9	104	88	6	299	43	6	6	43	1.55
12352677--12352890	111	1.9	113	85	10	305	29	29	7	33	1.84
12353097--12353248	6	25.2	6	75	1	88	46	38	2	11	1.55
12353109--12353248	18	7.7	18	73	3	111	46	38	2	12	1.56
12354976--12355133	65	2.5	64	81	10	180	31	24	17	27	1.97
12363034--12363219	65	2.9	63	78	5	185	29	23	19	26	1.98
12363165--12363213	19	2.6	19	84	9	57	24	28	20	26	1.99
12364325--12364405	21	3.8	21	93	1	117	17	40	27	14	1.88
12365682--12365729	19	2.5	20	82	3	62	52	6	12	29	1.63
12367178--12367255	20	3.8	20	91	3	129	19	37	29	14	1.91
12367178--12367255	41	1.9	40	92	2	129	19	37	29	14	1.91
12368207--12368234	3	9.3	3	100	0	56	0	32	0	67	0.91
12369029--12369072	20	2.2	20	91	0	70	11	13	13	61	1.57
12369038--12369082	20	2.2	20	84	0	54	17	13	13	55	1.69
12369169--12369213	23	2.0	22	86	4	63	24	11	26	37	1.89
12369173--12369224	23	2.3	23	82	0	59	25	9	26	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12369805--12369842	13	2.8	13	82	17	51	60	0	2	36	1.11
12371479--12371615	41	3.5	40	80	11	133	45	2	2	49	1.29
12371479--12371612	2	67.5	2	75	15	118	45	2	2	49	1.29
12371492--12371680	94	2.0	96	81	11	228	44	5	4	45	1.45
12371675--12371716	22	1.9	22	90	0	66	45	4	4	45	1.45
12371745--12371840	17	5.3	17	72	15	68	45	1	3	50	1.24
12371695--12371841	79	1.9	80	84	4	199	46	2	4	47	1.33
12371773--12371835	22	2.8	24	76	11	69	47	1	3	47	1.27
12371488--12371730	20	12.3	20	70	12	85	44	4	4	45	1.45
12371943--12372041	31	3.1	33	71	16	84	45	8	5	41	1.55
12371995--12372019	13	1.9	13	100	0	50	52	8	0	40	1.31
12371942--12372031	22	4.2	22	75	11	87	46	7	4	41	1.53
12372026--12372110	26	3.2	26	76	18	70	41	7	7	44	1.59
12372085--12372198	7	18.3	6	75	17	67	42	3	5	48	1.42
12372072--12372193	18	7.4	17	70	19	80	43	4	4	48	1.41
12372085--12372191	27	4.0	27	70	23	57	42	3	4	48	1.41
12372100--12372189	47	1.9	47	81	4	110	43	3	4	48	1.39
12372072--12372560	20	24.2	19	67	20	135	44	6	4	43	1.51
12372276--12372313	11	3.5	11	82	10	51	52	7	5	34	1.53
12372268--12372391	60	2.1	59	83	6	151	45	9	8	37	1.67
12372310--12372349	18	2.2	18	90	0	62	40	10	10	40	1.72
12372308--12372403	42	2.3	41	80	7	122	42	9	7	40	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12372328--12372417	24	4.0	24	68	24	70	43	8	7	40	1.65
12372383--12372432	24	2.0	25	85	11	68	40	6	10	44	1.63
12372425--12372565	2	69.0	2	71	21	98	45	5	2	46	1.38
12372459--12372568	26	4.3	26	88	10	156	45	4	0	49	1.29
12372425--12372565	7	20.6	7	74	16	82	45	5	2	46	1.38
12372593--12372704	18	6.2	18	66	24	65	41	9	7	41	1.65
12372680--12372762	20	3.8	20	71	22	69	40	7	3	48	1.48
12372680--12372750	27	2.7	27	84	2	99	39	7	4	49	1.49
12372809--12372880	27	2.7	27	78	4	74	43	6	2	47	1.45
12372717--12372849	56	2.6	47	70	22	108	43	9	3	43	1.54
12372849--12372883	15	2.4	14	95	4	61	45	5	0	48	1.26
12372965--12373009	20	2.3	20	85	11	58	40	6	8	44	1.62
12373001--12373034	13	2.6	13	90	0	50	55	5	2	35	1.39
12373019--12373214	18	11.3	18	72	12	160	44	6	6	42	1.55
12373006--12373092	32	2.7	31	78	5	86	45	4	6	42	1.51
12373084--12373276	33	5.7	33	83	8	246	43	7	6	42	1.60
12373629--12373848	112	2.0	113	79	8	243	32	28	5	32	1.81
12374035--12374115	6	13.7	6	72	12	51	48	39	2	9	1.50
12374034--12374155	12	10.2	12	71	6	70	46	39	2	11	1.53
12374058--12374152	18	5.3	18	79	0	82	45	40	3	11	1.56
12374053--12374155	6	17.2	6	74	0	62	45	39	2	11	1.56
12374090--12374198	47	2.3	48	85	3	148	45	32	1	20	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12374280--12374304	7	3.6	7	100	0	50	24	0	0	76	0.80
12376136--12376214	42	1.9	41	84	2	104	35	15	24	25	1.94
12377164--12377224	3	21.0	3	80	12	74	32	1	0	65	1.02
12377165--12377226	25	2.6	25	82	12	69	35	1	0	62	1.05
12378067--12378126	28	2.2	27	80	11	68	31	3	0	65	1.09
12379626--12379681	29	1.9	29	82	7	69	44	14	23	17	1.85
12380250--12380283	12	2.8	12	100	0	68	64	0	26	8	1.22
12380543--12380574	15	2.1	15	94	0	55	25	18	9	46	1.79
12387066--12387108	19	2.3	18	84	11	59	79	0	9	11	0.95
12389428--12389992	113	4.9	113	81	7	610	38	13	19	28	1.90
12389463--12389992	112	4.6	113	82	8	555	38	13	19	28	1.89
12389463--12389872	225	1.8	225	90	3	673	39	12	19	28	1.89
12390354--12390414	3	21.0	3	80	12	74	32	1	0	65	1.02
12390354--12390444	25	3.5	25	78	16	73	34	1	0	64	1.01
12390427--12390470	23	1.9	23	85	0	61	29	4	0	65	1.12
12393068--12393097	13	2.4	13	94	5	53	50	0	23	26	1.50
12398140--12398184	23	2.0	23	86	0	63	26	8	26	37	1.86
12401295--12401375	2	40.5	2	90	4	119	51	1	0	46	1.08
12401353--12401476	42	2.9	41	82	8	151	45	3	6	44	1.45
12401462--12401558	11	9.4	11	67	10	53	46	2	4	47	1.33
12401299--12401567	20	13.4	20	74	18	149	46	2	4	46	1.36
12401456--12401519	21	3.0	22	75	15	62	43	1	7	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12401503--12401558	17	3.1	17	84	7	58	44	1	3	50	1.29
12401638--12401662	13	1.9	13	100	0	50	52	32	0	16	1.44
12401788--12401853	24	2.7	24	95	2	114	45	9	7	37	1.64
12401887--12401956	15	4.3	16	75	12	63	50	4	1	44	1.30
12402131--12402264	53	2.4	56	83	4	166	41	8	8	41	1.64
12402167--12402252	18	4.6	19	68	5	59	44	8	4	43	1.54
12402191--12402249	22	2.7	22	78	17	68	42	8	5	44	1.57
12402295--12402342	21	2.3	21	78	7	53	37	12	6	43	1.68
12402412--12402472	14	4.3	14	76	12	52	44	4	4	45	1.46
12402365--12402572	65	3.2	64	77	14	212	43	4	3	48	1.41

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