genome.fa.s9634.2.7.7.80.10.50.1000.75.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  75  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)
15894174--15894202	15	2.0	15	93	6	51	0	20	3	75	0.94
15897866--15898032	91	1.8	91	83	2	219	22	26	21	29	1.99
15913941--15913974	2	17.5	2	93	6	61	50	0	0	50	1.00
15916360--15916395	15	2.4	15	90	0	54	44	0	5	50	1.25
15918003--15918041	19	2.1	19	90	4	62	58	15	15	10	1.62
15920622--15920657	15	2.4	15	90	0	54	44	0	5	50	1.25
15922723--15922827	36	2.9	36	92	1	167	30	36	4	28	1.78
15922745--15922810	13	5.5	11	74	22	62	33	34	3	28	1.73
15930959--15930996	16	2.4	16	90	0	58	28	15	28	26	1.96
15932778--15932828	20	2.6	20	90	3	77	35	15	5	43	1.71
15933544--15933615	34	2.2	31	88	11	101	73	4	15	6	1.20
15936949--15936999	20	2.6	20	90	3	77	35	15	5	43	1.71
15937710--15937781	34	2.2	31	88	11	101	73	4	15	6	1.20
15941115--15941165	20	2.6	20	90	3	77	35	15	5	43	1.71
15946525--15946554	15	2.1	15	93	6	53	0	20	3	76	0.92
15946547--15946608	27	2.2	28	78	13	74	11	17	11	59	1.60
15950408--15950453	5	9.0	5	82	17	51	0	19	4	76	0.96
15950479--15950522	19	2.2	20	84	11	56	0	13	6	79	0.92
15956171--15956237	30	2.3	28	75	14	66	49	11	20	17	1.79
15958214--15958259	24	1.9	24	86	0	65	50	19	13	17	1.78
15959498--15959549	24	2.2	24	82	0	59	28	21	19	30	1.97
15962145--15962204	30	2.0	31	83	3	77	26	8	8	56	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15963114--15963164	20	2.6	20	90	3	77	35	15	5	43	1.71
15963579--15963618	19	2.0	20	90	4	64	20	15	0	65	1.28
15967013--15967084	20	3.6	20	94	3	119	47	5	12	34	1.65
15967968--15968027	30	2.0	31	86	3	86	53	10	8	28	1.63
15970461--15970490	15	2.1	15	93	6	53	0	20	3	76	0.92
15970483--15970544	27	2.2	28	78	13	74	11	17	11	59	1.60
15973344--15973395	19	2.6	21	90	6	81	48	5	13	32	1.66
15975403--15975487	11	7.2	11	72	22	66	31	36	3	28	1.74
15975400--15975504	36	2.9	36	94	1	176	30	37	4	27	1.77
15975941--15975981	14	2.7	15	82	17	50	78	2	17	2	0.98
15977296--15977364	34	2.1	33	83	8	86	30	36	1	31	1.67
15985516--15985620	36	2.9	36	92	1	167	31	36	4	27	1.78
15986391--15986429	20	2.0	19	85	5	51	41	10	17	30	1.83
16003689--16003902	109	2.0	108	87	8	310	34	10	30	24	1.90
16005799--16005827	12	2.4	12	100	0	58	0	6	13	79	0.93
16005809--16005846	9	4.0	9	93	6	58	0	2	13	84	0.73
16007141--16007182	23	1.9	21	85	9	57	69	0	9	21	1.17
16008355--16008401	23	2.0	24	95	4	87	68	6	12	12	1.39
16016946--16016975	13	2.4	13	94	5	53	43	0	30	26	1.55
16018200--16018250	19	2.6	20	90	3	77	43	5	15	35	1.71
16021613--16021691	17	4.5	19	67	27	57	7	13	3	74	1.17
16021613--16021691	18	4.5	19	72	23	66	7	13	3	74	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16021613--16021685	34	2.2	32	85	9	94	8	13	4	73	1.20
16023336--16023395	30	2.0	31	83	3	77	55	10	8	26	1.61
16032519--16032849	163	2.0	160	91	2	538	22	22	15	40	1.90
16034345--16034378	16	2.1	17	89	10	54	23	0	5	70	1.09
16034762--16034807	23	2.0	23	88	12	69	15	13	4	67	1.38
16035136--16035182	12	3.8	12	81	13	60	80	14	4	0	0.85
16039496--16039541	23	2.0	23	88	12	69	15	13	4	67	1.38
16041055--16041107	27	1.9	28	84	3	72	13	15	13	58	1.64
16043497--16043606	35	3.1	36	86	3	170	27	35	3	33	1.74
16051526--16051594	33	2.1	33	83	5	86	31	1	36	30	1.67
16051580--16051676	13	8.0	12	72	22	62	28	3	37	30	1.73
16051565--16051677	36	3.2	36	92	1	174	27	3	36	32	1.74
16057262--16057330	33	2.1	33	83	5	86	31	1	36	30	1.67
16057316--16057412	13	8.0	12	72	22	62	28	3	37	30	1.73
16057301--16057413	36	3.2	36	92	1	174	27	3	36	32	1.74
16059393--16059445	28	1.9	27	84	3	70	58	16	15	9	1.62
16059444--16059476	15	2.1	16	88	5	50	75	3	18	3	1.06
16065955--16066039	11	7.2	11	72	22	57	30	37	4	27	1.77
16065952--16066056	36	2.9	35	90	4	156	30	36	5	27	1.80
16070900--16070984	11	7.2	11	71	22	57	30	36	4	28	1.78
16070897--16071001	36	2.9	35	90	4	156	29	36	5	28	1.80
16071789--16071842	23	2.2	25	87	6	76	9	16	12	61	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16071832--16071870	14	2.8	14	84	0	51	10	7	10	71	1.30
16073563--16073764	74	2.7	75	86	3	273	19	24	32	23	1.98
16078671--16078727	30	1.9	30	92	0	96	21	17	24	36	1.94
16086571--16086634	26	2.5	26	83	14	80	9	17	3	70	1.27
16093815--16093915	36	2.8	36	93	1	168	29	3	34	31	1.76
16097771--16097872	36	2.9	36	91	1	152	32	4	32	30	1.79
16100923--16100965	23	1.9	21	81	13	50	32	18	11	37	1.87
16107258--16107322	13	5.4	12	75	21	57	29	3	35	32	1.73
16107240--16107340	36	2.8	36	93	1	168	27	3	36	31	1.75
16115406--16115475	30	2.3	30	97	0	131	61	0	27	11	1.30
16115422--16115472	15	3.4	15	73	10	59	62	0	27	9	1.26
16115406--16115487	15	5.4	15	69	15	53	60	0	26	12	1.31
16115604--16115661	28	2.2	26	81	12	64	8	20	3	67	1.33
16115697--16115730	17	2.0	17	88	11	52	0	11	5	82	0.83
16127552--16127656	36	2.9	36	91	1	167	29	3	35	31	1.75
16132849--16132894	24	1.9	24	90	0	74	21	19	19	39	1.93
16134656--16134720	11	5.6	12	71	23	50	30	1	35	32	1.67
16140832--16140883	25	2.1	25	100	0	104	19	26	15	38	1.91
16153053--16153607	282	2.0	282	94	0	966	39	13	16	30	1.87
16155335--16155394	30	2.0	31	86	3	86	55	8	8	28	1.59
16157633--16157672	15	2.7	15	96	3	73	62	0	25	12	1.30
16158711--16158770	30	2.0	31	86	3	86	53	10	8	28	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16160012--16160078	30	2.2	30	86	0	89	37	13	23	25	1.92
16164094--16164136	23	1.9	21	81	13	50	32	18	13	34	1.90
16168057--16168099	23	1.9	21	81	13	50	32	18	13	34	1.90
16171512--16171554	20	2.2	20	87	4	61	51	6	9	32	1.61
16175762--16175847	11	7.2	12	74	22	67	29	2	37	31	1.70
16175744--16175848	36	2.9	36	92	1	167	27	3	37	31	1.75
16177147--16177188	22	1.9	22	90	9	68	14	11	4	69	1.34
16177516--16177542	11	2.5	11	100	0	54	92	7	0	0	0.38
16177517--16177579	28	2.2	29	91	2	101	80	14	4	0	0.86
16177515--16177586	10	7.5	10	83	9	87	77	16	5	0	0.94
16177537--16177586	9	5.4	9	85	4	73	74	18	8	0	1.06
16177528--16177586	18	3.2	18	95	2	100	76	16	6	0	1.00
16191031--16191116	11	7.2	12	74	22	67	29	2	37	31	1.70
16191013--16191117	36	2.9	36	92	1	167	27	3	37	31	1.75
16192412--16192463	11	4.7	11	88	4	54	13	13	1	71	1.24
16192412--16192467	22	2.5	22	86	11	71	12	12	3	71	1.27
16196114--16196198	11	7.2	11	74	22	75	29	2	35	32	1.70
16196097--16196201	36	2.9	36	90	1	158	28	3	36	31	1.75
16199618--16199653	11	3.4	11	88	3	56	91	8	0	0	0.41
16199619--16199653	18	1.9	18	100	0	70	91	8	0	0	0.42
16214440--16214482	23	1.9	21	81	13	50	32	18	13	34	1.90
16219460--16219489	15	2.1	15	93	6	53	0	20	3	76	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16219482--16219543	27	2.2	28	78	13	74	12	17	9	59	1.59
16220923--16220973	21	2.5	21	90	6	79	35	11	5	47	1.65
16222745--16222784	19	2.0	20	86	13	57	67	0	10	22	1.20
16223197--16223248	19	2.6	21	90	6	81	46	5	13	34	1.67
16230659--16230738	35	2.2	37	91	4	128	27	3	37	31	1.74
16235131--16235210	35	2.2	37	91	4	128	27	3	37	31	1.74
16243101--16243151	20	2.6	20	90	3	77	35	15	5	43	1.71
16246287--16246351	33	2.0	32	82	8	78	33	1	32	32	1.67
16246733--16246783	19	2.6	20	87	3	68	45	5	15	33	1.71
16250306--16250370	33	2.0	32	82	8	78	33	1	32	32	1.67

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