genome.fa.s1129.2.7.7.80.10.50.1000.77.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  77  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)
18529220--18529259	3	13.3	3	100	0	80	32	0	0	67	0.91
18531008--18531302	145	2.0	145	81	1	358	47	9	5	36	1.61
18531191--18531576	196	2.0	194	83	8	498	46	9	5	38	1.60
18533023--18533078	27	2.1	27	93	0	94	37	26	8	26	1.86
18536645--18536759	20	5.7	20	77	6	115	32	26	18	22	1.97
18536642--18536779	41	3.4	41	79	2	170	34	25	18	21	1.96
18537489--18537542	24	2.2	24	93	0	90	20	18	20	40	1.91
18540213--18540249	14	2.6	14	86	0	56	48	21	0	29	1.50
18541650--18541742	42	2.2	42	88	0	141	21	16	41	20	1.90
18541676--18541738	21	3.0	21	67	17	58	22	14	42	20	1.88
18542027--18542093	25	2.6	25	77	9	64	58	7	8	25	1.55
18542093--18542181	20	4.4	20	89	0	133	37	24	20	17	1.94
18542186--18542236	19	2.7	19	84	6	68	45	23	19	11	1.83
18542241--18542293	20	2.7	20	88	2	81	13	18	18	49	1.80
18542298--18542366	20	3.5	20	84	7	95	18	20	26	34	1.96
18542941--18542989	18	2.7	18	100	0	98	12	12	46	28	1.77
18544321--18544392	20	3.6	20	85	7	110	44	20	19	15	1.86
18544361--18544455	32	2.9	34	79	6	113	42	20	22	15	1.89
18544455--18544520	19	3.4	19	87	4	96	9	15	28	46	1.76
18544542--18544647	20	5.4	19	85	5	104	14	17	23	44	1.86
18544602--18544651	19	2.6	19	96	0	91	12	22	20	46	1.83
18544989--18545038	22	2.3	22	96	0	91	20	16	44	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18545244--18545332	20	4.4	20	92	0	142	22	20	31	25	1.98
18545321--18545393	21	3.5	21	90	1	103	20	23	17	38	1.93
18545383--18545435	21	2.5	22	81	6	74	33	18	26	20	1.96
18546463--18546556	44	2.1	44	98	0	179	38	18	5	38	1.73
18546964--18547001	15	2.6	15	91	4	60	34	0	0	65	0.93
18551736--18551761	12	2.2	12	100	0	52	76	0	0	23	0.78
18552252--18552297	21	2.2	21	84	0	56	17	13	30	39	1.87
18554637--18554665	2	14.5	2	100	0	58	51	0	48	0	1.00
18558328--18558456	40	3.2	40	100	0	258	33	17	14	34	1.90
18567407--18567440	15	2.2	16	89	5	52	29	0	2	67	1.05
18573592--18573634	5	8.6	5	85	10	61	76	0	2	20	0.89
18578858--18579143	142	2.0	143	99	0	565	27	24	13	34	1.93
18589959--18590057	31	3.3	30	79	17	107	47	6	1	45	1.34
18592065--18592191	60	2.1	60	81	5	141	39	7	23	29	1.81
18595010--18595066	21	2.8	21	78	2	62	47	0	12	40	1.41
18600432--18600493	32	1.9	32	93	0	106	29	12	9	48	1.73
18600562--18600630	32	2.2	32	89	0	102	36	15	11	36	1.84
18600414--18600743	136	2.4	138	86	4	468	34	20	8	36	1.83
18600609--18600840	107	2.2	107	84	1	304	35	21	8	34	1.84
18600778--18600851	32	2.3	32	85	0	94	29	22	6	40	1.80
18601483--18601575	36	2.7	36	78	8	95	16	10	18	54	1.69
18602279--18602324	2	23.0	2	91	8	76	47	2	0	50	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18602279--18602324	23	2.0	23	95	0	83	47	2	0	50	1.13
18602432--18602494	29	2.1	29	88	2	90	30	30	11	28	1.91
18602506--18602633	51	2.5	51	86	5	170	18	34	28	18	1.95
18602744--18602784	10	4.1	10	84	12	57	31	29	0	39	1.57
18602908--18603128	110	2.0	111	95	0	399	36	8	10	44	1.69
18603940--18604222	143	2.0	141	97	2	532	36	4	15	42	1.69
18605216--18605288	25	3.0	24	68	24	62	26	6	4	63	1.38
18608969--18609097	51	2.5	51	84	9	156	20	30	31	17	1.96
18610126--18610190	32	2.0	32	96	0	121	58	0	32	9	1.30
18610436--18610478	15	2.8	15	85	3	59	30	0	2	67	1.03
18610432--18610485	23	2.4	22	81	6	63	29	0	1	68	1.00
18612137--18612231	50	1.9	50	80	8	113	45	10	12	31	1.76
18612393--18612425	17	1.9	17	100	0	66	33	24	12	30	1.91
18612952--18613010	20	3.0	20	85	2	66	22	13	13	50	1.76
18614203--18614290	45	1.9	46	90	2	142	28	25	18	28	1.98
18614320--18614410	45	2.0	45	100	0	182	28	29	17	24	1.97
18621814--18621857	21	2.1	21	82	0	52	9	43	15	31	1.79
18623010--18623097	45	1.9	46	93	2	151	27	25	19	28	1.99
18626163--18626208	14	3.1	14	84	6	56	60	2	0	36	1.09
18626708--18626758	23	2.2	23	96	0	93	52	17	23	5	1.66
18631785--18631825	21	2.0	21	85	9	57	51	9	2	36	1.48
18635959--18637648	4	423.5	4	97	0	2938	47	24	2	25	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18638423--18638466	13	3.4	13	83	0	61	18	45	18	18	1.86
18639785--18639823	19	2.1	19	86	13	55	30	5	5	58	1.41
18645735--18645773	19	2.1	19	86	13	55	30	5	5	58	1.41
18645852--18645905	4	13.5	4	96	0	99	48	24	1	25	1.61
18646518--18647012	4	126.0	4	93	5	870	50	25	0	24	1.52
18650516--18650647	66	2.0	66	100	0	264	31	21	6	40	1.77
18659512--18659779	129	2.1	126	91	5	407	33	21	15	29	1.94
18662808--18662850	22	2.0	23	86	9	63	41	23	0	34	1.55
18662121--18663597	478	3.0	478	84	5	1740	31	14	17	37	1.89
18667896--18667936	19	2.2	19	100	0	82	34	14	29	21	1.93
18689633--18689714	23	3.7	22	79	9	78	23	30	24	21	1.99
18700868--18700907	14	2.7	14	84	7	53	32	2	0	65	1.06
18700831--18700900	23	2.9	23	75	12	59	27	5	0	67	1.13
18700892--18700937	2	23.5	2	85	12	60	43	4	0	52	1.21
18701096--18701167	36	1.9	36	83	10	92	25	4	6	63	1.37
18701315--18701353	7	5.3	7	87	9	51	15	0	2	82	0.79
18701323--18701353	15	2.1	15	93	0	53	16	0	0	83	0.64
18706297--18706619	106	3.0	106	88	0	459	34	23	19	22	1.96
18706874--18706960	29	3.2	28	66	21	78	42	20	8	28	1.80
18706874--18706978	51	2.1	50	92	1	174	39	20	8	32	1.82
18706925--18707164	102	2.4	102	89	0	372	32	18	11	37	1.86
18707065--18707137	37	2.0	37	91	0	119	27	19	12	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18707202--18707302	36	2.8	37	87	3	159	29	22	12	34	1.92
18707319--18707437	36	3.3	36	79	9	134	29	16	13	40	1.87
18708695--18708762	16	4.1	18	73	17	67	39	1	0	58	1.07
18708695--18708761	7	9.4	7	76	14	57	38	1	0	59	1.06
18708792--18708873	37	2.3	34	82	14	103	24	7	2	65	1.30
18708792--18708888	37	2.8	36	80	16	100	26	6	2	64	1.28
18708880--18708921	17	2.4	18	84	11	52	16	4	0	78	0.91
18712639--18712680	18	2.2	19	87	8	59	71	0	9	19	1.13
18713129--18713177	14	3.4	14	76	15	55	53	6	16	24	1.66
18713132--18713177	15	3.1	15	73	17	51	54	6	17	21	1.65
18713376--18713467	32	2.8	32	85	3	112	55	4	11	28	1.55
18713932--18713999	33	2.1	33	94	0	118	30	17	22	29	1.97
18717987--18718044	24	2.4	24	100	0	116	25	25	27	20	1.99
18720901--18721015	60	1.9	59	85	1	158	43	7	20	28	1.79
18720901--18721048	59	2.5	60	81	7	167	44	6	18	30	1.75
18721888--18721936	24	2.0	24	88	7	73	26	4	20	48	1.67
18729516--18729566	6	8.0	6	83	12	66	35	0	0	64	0.94
18729517--18729566	13	3.8	13	97	0	91	36	0	0	64	0.94
18730205--18730279	38	2.0	37	84	5	98	48	4	1	46	1.29
18755952--18756325	55	6.8	55	81	6	377	34	16	19	29	1.93
18755954--18756325	110	3.4	109	85	5	477	34	16	19	29	1.93
18755947--18756325	165	2.3	164	86	4	503	34	16	18	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18762916--18763351	55	8.0	55	86	1	572	33	19	19	27	1.96
18766886--18766943	29	2.0	30	86	3	82	43	6	17	32	1.75
18766889--18766955	30	2.3	29	79	7	73	46	8	16	28	1.77
18768800--18768853	24	2.2	24	100	0	108	37	9	29	24	1.86
18772741--18772819	40	2.0	40	85	5	106	25	10	18	45	1.81
18773624--18773843	105	2.1	105	82	6	259	40	11	12	36	1.79
18775195--18775237	13	3.2	13	86	3	59	27	23	18	30	1.98
18775255--18775297	22	2.0	22	85	0	59	23	23	23	30	1.99
18778569--18778695	66	1.9	66	80	3	148	22	19	22	34	1.96
18782989--18783091	31	3.2	32	68	20	79	24	18	18	38	1.93

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