genome.fa.s8620.2.7.7.80.10.50.1000.61.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  61  of  64  ( 7674 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)
12328717--12328753	18	2.1	18	89	0	56	32	5	10	51	1.60
12343052--12343113	30	2.1	30	100	0	124	30	25	11	32	1.91
12343517--12343679	64	2.5	64	83	3	168	26	19	20	33	1.96
12345864--12345913	26	1.9	26	84	8	66	34	4	26	36	1.75
12349195--12349393	21	9.8	20	70	6	105	38	24	16	20	1.92
12349195--12349412	20	10.8	20	68	10	104	38	25	16	19	1.92
12349276--12349387	41	2.7	41	90	6	165	39	21	16	23	1.92
12349360--12349553	20	9.6	20	81	5	221	35	25	19	19	1.95
12349360--12349553	60	3.2	60	83	0	253	35	25	19	19	1.95
12349935--12350005	33	2.2	33	89	0	106	11	23	16	47	1.79
12350083--12350161	21	3.8	21	79	12	92	45	16	26	11	1.81
12350084--12350161	41	1.9	41	94	0	138	44	16	26	11	1.82
12350137--12350206	33	2.1	33	94	0	122	48	20	24	7	1.74
12350150--12350214	33	2.0	33	93	0	112	47	24	20	7	1.76
12350218--12350330	14	6.8	18	66	26	79	9	23	21	45	1.81
12350235--12350324	14	5.7	14	74	23	81	8	25	23	42	1.83
12350218--12350332	33	3.5	33	95	0	212	9	24	20	45	1.81
12350893--12351271	93	4.1	93	97	1	726	22	12	18	45	1.83
12350893--12351273	184	2.1	185	97	1	728	22	12	18	45	1.83
12351315--12351443	19	7.3	19	75	17	125	45	28	17	8	1.77
12351351--12351443	33	2.8	32	91	4	150	46	27	18	7	1.76
12351315--12351443	52	2.5	52	74	14	140	45	28	17	8	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12351439--12351573	19	7.6	19	75	16	128	11	19	23	45	1.82
12351461--12351517	14	3.7	14	77	20	60	10	21	22	45	1.82
12351444--12351536	33	2.8	33	95	0	168	10	20	21	47	1.80
12353495--12353530	14	2.6	14	95	0	63	33	0	22	44	1.53
12353637--12353735	19	5.5	19	83	13	138	44	17	23	15	1.86
12353637--12353752	53	2.2	53	93	3	200	43	17	25	14	1.87
12353742--12353857	19	6.6	19	74	19	117	15	23	18	43	1.88
12353742--12353857	52	2.2	52	95	1	205	15	23	18	43	1.88
12353916--12354013	19	5.4	19	84	13	143	45	17	22	14	1.84
12353916--12354032	53	2.2	53	98	1	227	44	17	23	13	1.85
12356350--12356374	12	2.1	12	100	0	50	0	28	0	72	0.86
12356549--12356595	24	2.0	24	87	8	69	38	21	14	25	1.92
12356870--12357125	20	12.8	20	85	1	235	19	17	24	38	1.93
12356874--12357086	40	5.3	40	91	4	279	21	17	24	36	1.94
12356870--12357125	60	4.3	60	80	6	259	19	17	24	38	1.93
12357112--12357194	21	4.0	21	73	6	78	25	16	24	33	1.96
12357092--12357190	42	2.4	43	77	11	100	21	18	23	37	1.94
12358268--12358392	35	3.4	36	79	13	103	44	6	4	45	1.48
12358279--12358582	39	8.3	36	74	15	200	42	7	4	45	1.53
12359689--12359829	71	2.0	71	100	0	282	40	17	7	35	1.76
12363329--12363371	18	2.4	19	80	7	54	44	4	6	44	1.52
12368712--12368741	14	2.1	14	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12379502--12379553	21	2.5	21	81	3	61	38	19	25	17	1.93
12379542--12379656	20	5.7	20	81	6	106	32	26	17	24	1.97
12379539--12379676	41	3.4	41	79	2	152	34	23	16	24	1.95
12379845--12379888	22	2.0	22	90	0	70	20	38	15	25	1.92
12381471--12381515	18	2.5	18	88	0	72	26	44	15	13	1.83
12381990--12382032	20	2.2	20	86	0	59	34	25	23	16	1.95
12382060--12382122	18	3.8	18	74	20	73	44	22	20	12	1.85
12382029--12382117	31	2.8	32	91	3	135	47	21	17	13	1.82
12382046--12382107	13	4.3	14	74	20	56	46	24	17	11	1.81
12382134--12382191	14	3.9	14	75	16	62	10	17	24	48	1.78
12382129--12382207	32	2.4	33	91	2	133	11	18	22	46	1.81
12382194--12382255	20	3.1	20	88	0	88	17	20	19	41	1.90
12384108--12384143	14	2.6	14	90	0	54	30	0	22	47	1.52
12384230--12384306	32	2.4	33	88	2	111	41	22	23	12	1.88
12384249--12384301	14	3.5	14	75	24	54	47	20	20	11	1.81
12384260--12384306	14	2.8	17	75	24	55	46	19	21	12	1.82
12384325--12384382	20	2.9	20	97	0	107	15	22	24	37	1.93
12388152--12388278	33	3.8	33	85	4	184	43	18	22	15	1.88
12388153--12388285	66	2.0	66	94	0	230	42	18	21	17	1.90
12388293--12388363	14	4.7	14	80	16	88	8	25	22	43	1.81
12388278--12388349	33	2.2	33	94	0	126	12	22	22	43	1.86
12388487--12388523	14	2.6	14	91	0	65	45	24	0	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12389743--12389809	21	3.2	21	68	4	55	19	20	35	23	1.95
12390421--12390549	61	2.1	62	95	2	233	23	37	18	20	1.94
12391981--12392041	20	3.2	20	79	9	72	44	18	21	16	1.87
12392007--12392067	32	1.9	32	86	6	88	42	22	21	13	1.87
12392659--12392707	20	2.5	20	86	0	62	26	16	30	26	1.97
12392716--12392748	16	2.1	16	100	0	66	24	18	24	33	1.97
12393795--12393822	13	2.2	13	100	0	56	46	0	0	53	1.00
12394015--12394124	55	2.0	54	98	1	211	30	20	12	36	1.90
12395366--12395392	6	4.5	6	100	0	54	14	14	51	18	1.76
12395366--12395400	18	1.9	18	88	0	52	17	17	45	20	1.85
12395800--12395863	30	2.1	30	100	0	128	34	12	23	29	1.92
12405298--12405440	60	2.4	60	80	9	157	33	25	4	37	1.75
12409518--12409571	28	2.0	28	96	3	101	40	24	7	27	1.81
12417638--12417730	38	2.4	38	82	10	109	48	5	7	38	1.54
12418884--12418946	22	2.7	24	86	11	87	34	3	1	60	1.22
12422213--12422277	17	3.9	17	76	8	71	56	6	15	21	1.60
12424984--12425848	84	10.4	84	77	4	840	24	20	24	30	1.98
12424971--12425833	165	5.2	165	83	3	853	24	19	25	30	1.98
12424984--12425853	417	2.1	413	85	2	1143	24	20	24	30	1.98
12429309--12429337	7	4.1	7	100	0	58	31	13	27	27	1.94
12431116--12431162	18	2.6	18	77	16	51	74	2	4	19	1.09
12433619--12433696	39	2.0	38	92	2	129	38	11	19	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12433745--12433782	15	2.4	16	83	16	53	47	2	2	47	1.30
12438544--12438641	49	2.0	49	97	0	187	54	14	9	22	1.68
12438868--12438907	15	2.4	18	76	20	50	30	2	5	62	1.29
12438872--12438906	15	2.2	16	90	5	54	31	2	5	60	1.35
12441451--12441501	27	1.9	26	84	11	68	33	0	0	66	0.92
12448652--12448708	24	2.4	24	96	0	105	7	15	24	52	1.67
12457058--12457095	15	2.5	15	91	0	58	36	7	23	31	1.84
12461316--12461375	15	4.0	15	95	0	102	31	31	21	15	1.94
12461523--12461557	12	2.9	12	91	0	52	37	25	5	31	1.80
12461866--12462086	64	3.5	64	84	3	223	27	18	19	34	1.95
12468217--12468249	15	2.2	15	100	0	66	33	33	18	15	1.92
12468392--12468428	12	3.1	12	84	0	56	37	24	5	32	1.78
12468733--12468852	64	1.9	62	86	3	168	25	15	21	36	1.93
12471867--12471957	38	2.4	39	88	1	130	51	13	13	21	1.74
12477688--12477768	42	1.9	42	85	5	110	40	4	2	51	1.37
12477986--12478026	2	22.0	2	85	14	61	48	0	0	51	1.00
12477983--12478026	9	5.0	9	81	13	56	50	0	0	50	1.00
12477986--12478025	11	3.8	11	83	12	57	50	0	0	50	1.00
12477987--12478029	20	2.2	20	95	0	77	46	0	0	53	1.00
12478242--12478277	2	18.5	2	88	5	56	47	0	2	50	1.15
12480818--12481626	165	4.9	165	91	1	1248	25	20	23	29	1.99
12480822--12481655	332	2.5	331	89	2	1266	25	20	23	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12488434--12488484	3	18.0	3	84	11	72	31	0	0	68	0.90
12488429--12488483	14	3.7	14	80	7	56	27	0	0	72	0.85
12488440--12488482	22	2.0	22	95	0	77	32	0	0	67	0.91
12488435--12488484	25	2.0	25	92	0	82	32	0	0	68	0.90
12488441--12488499	25	2.4	25	82	5	75	35	1	0	62	1.05
12489507--12489594	30	2.8	31	69	19	74	28	7	9	54	1.60
12499623--12499647	13	1.9	13	100	0	50	52	0	0	48	1.00
12500267--12500324	22	2.6	23	75	10	66	37	1	0	60	1.07
12506187--12506228	18	2.3	19	83	4	50	23	54	14	7	1.64
12510699--12510723	2	12.5	2	100	0	50	48	0	0	52	1.00

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