genome.fa.s23.2.7.7.80.10.50.1000.42.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: At_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   

This is table  42  of  167  ( 19959 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)
12859262--12859484	94	2.3	96	87	2	315	30	28	16	25	1.96
12871049--12871073	11	2.3	11	100	0	50	28	28	0	44	1.55
12872365--12872418	23	2.3	23	96	0	99	25	18	9	46	1.79
12882444--12882489	23	2.0	23	100	0	92	52	8	0	39	1.33
12889523--12889578	21	2.6	21	86	8	69	33	0	3	62	1.12
12891198--12891226	15	2.0	15	93	6	51	27	3	0	68	1.05
12894044--12894085	22	2.0	21	81	13	50	47	0	9	42	1.36
12894259--12894451	48	4.0	48	100	0	386	39	4	2	53	1.32
12894279--12894452	24	7.2	24	71	21	150	39	4	1	54	1.31
12914963--12915038	20	3.4	24	77	19	67	68	3	1	26	1.15
12914992--12915051	22	2.8	22	82	9	63	68	6	1	23	1.22
12917425--12917566	56	2.5	56	88	4	196	30	16	21	31	1.95
12917657--12917851	97	2.0	97	92	0	327	32	7	23	36	1.82
12920386--12920820	216	2.0	216	99	0	852	36	16	12	34	1.87
12921068--12921132	18	3.6	18	85	0	94	43	18	9	29	1.81
12921049--12921102	28	1.9	28	81	7	65	38	20	9	31	1.84
12921066--12921147	36	2.3	36	84	0	110	39	18	10	31	1.85
12922629--12922678	19	2.6	19	87	3	64	54	2	0	44	1.11
12922981--12923020	13	3.1	13	82	10	55	57	0	2	40	1.12
12923152--12923198	19	2.4	19	76	20	51	36	19	4	40	1.71
12923235--12923266	5	6.6	5	92	7	57	81	0	0	18	0.70
12923236--12923266	14	2.2	14	100	0	62	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12927622--12927649	5	5.6	5	100	0	56	82	0	0	17	0.68
12935133--12935219	21	4.0	23	80	10	92	37	25	21	14	1.92
12935591--12935648	15	3.8	15	88	2	89	51	12	0	36	1.39
12937234--12937291	17	3.4	17	76	7	64	51	6	3	37	1.46
12938106--12938154	25	2.0	25	87	0	71	38	2	8	51	1.43
12944037--12944069	17	1.9	17	88	11	50	45	33	0	21	1.52
12950439--12950468	14	2.1	14	93	0	51	30	3	26	40	1.72
12971784--12971825	20	2.0	22	86	9	61	35	11	4	47	1.61
12980110--12980148	20	2.0	20	89	0	60	46	15	5	33	1.68
12980439--12980485	19	2.4	20	89	3	69	44	12	4	38	1.62
12982113--12982394	48	5.9	48	76	6	212	23	27	19	29	1.98
12989658--12989792	48	2.8	46	81	8	130	22	27	20	28	1.99
12989711--12989893	96	1.9	96	82	0	231	24	28	18	29	1.98
12989709--12989926	96	2.3	93	78	7	229	24	27	18	30	1.98
12989867--12989978	48	2.3	48	84	6	138	23	24	17	34	1.96
12989899--12989990	48	1.9	48	82	8	116	23	23	18	33	1.97
12996096--12996129	11	3.1	11	95	0	59	35	0	20	44	1.52
12996507--12996826	46	7.0	45	82	7	331	43	14	21	20	1.87
12996507--12996811	92	3.3	92	85	3	384	44	13	21	20	1.86
12996517--12996801	138	2.1	138	85	1	374	43	14	21	20	1.87
13000041--13000133	7	13.0	7	79	4	105	47	34	2	16	1.58
13000041--13000133	22	4.3	21	80	4	105	47	34	2	16	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13002877--13003013	23	5.9	23	74	12	111	31	17	22	28	1.97
13002877--13003013	46	2.9	46	81	11	145	31	17	22	28	1.97
13002927--13003023	23	4.3	23	79	6	99	30	19	23	25	1.98
13002927--13003023	46	2.1	45	85	9	126	30	19	23	25	1.98
13005872--13005904	13	2.6	13	90	4	50	24	9	0	66	1.20
13006752--13006782	7	4.4	7	95	0	53	67	0	32	0	0.91
13012849--13012985	54	2.5	53	91	2	211	17	24	21	35	1.95
13012845--13013003	27	5.9	27	82	11	184	18	25	21	35	1.95
13018113--13018137	13	1.9	13	100	0	50	28	56	8	8	1.57
13023600--13023661	19	3.2	19	95	4	106	37	9	17	35	1.83
13024010--13024053	19	2.3	19	84	0	52	34	6	4	54	1.47
13027431--13027470	4	10.0	4	94	0	71	47	25	2	25	1.64
13027589--13027761	92	1.9	93	82	3	224	25	22	18	33	1.97
13028083--13028124	12	3.4	12	80	6	57	23	7	23	45	1.78
13029065--13029114	7	7.1	7	76	17	50	54	18	0	28	1.44
13029069--13029113	21	2.0	23	87	8	67	57	17	0	24	1.40
13029197--13029253	30	1.9	30	92	0	96	31	19	19	29	1.96
13031985--13032092	26	4.2	26	89	0	171	37	24	6	31	1.81
13038725--13038781	20	2.9	19	75	10	53	42	10	8	38	1.71
13046262--13046444	91	2.0	92	96	1	341	36	19	16	27	1.93
13047335--13047736	47	8.6	47	100	0	804	23	17	29	29	1.97
13050718--13050786	15	4.6	15	83	0	84	11	17	13	57	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13050709--13050796	30	3.0	30	81	8	99	10	17	15	56	1.66
13056540--13056594	23	2.5	22	79	5	65	60	7	0	32	1.24
13056759--13056787	14	2.1	14	100	0	58	51	13	6	27	1.66
13059447--13059554	26	4.2	26	84	0	153	31	7	25	35	1.84
13061044--13061093	26	1.9	26	84	8	66	38	22	16	24	1.93
13063793--13063916	38	3.3	40	77	16	106	42	2	3	51	1.31
13064001--13064106	44	2.4	44	88	3	160	40	25	4	29	1.76
13064119--13064170	16	3.2	16	81	10	70	28	23	5	42	1.77
13064728--13064814	27	3.2	27	67	25	74	62	12	5	19	1.50
13065743--13065865	60	2.0	60	98	0	237	32	19	13	34	1.90
13068504--13068538	14	2.5	14	90	9	54	45	2	0	51	1.16
13071855--13071912	29	2.0	29	100	0	116	31	13	13	41	1.84
13074492--13074516	11	2.3	11	100	0	50	40	0	0	60	0.97
13075753--13075819	36	2.0	33	83	16	86	40	11	23	23	1.88
13078496--13078557	30	2.1	30	87	6	90	58	1	1	38	1.18
13078529--13078563	17	2.1	16	89	5	52	60	2	0	37	1.12
13078481--13078582	27	3.6	28	77	17	95	55	1	0	41	1.17
13083122--13083151	15	2.0	15	93	0	51	53	36	0	10	1.35
13084710--13084765	22	2.6	23	80	11	64	30	3	0	66	1.09
13085425--13085483	26	2.4	24	78	10	66	32	11	6	49	1.66
13100046--13100903	2	429.5	2	99	0	1682	49	0	49	0	1.03
13102436--13102470	7	5.0	7	92	0	61	17	0	40	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13102436--13102476	14	2.9	14	92	0	64	17	0	36	46	1.48
13102529--13102572	17	2.6	17	96	0	79	29	4	11	54	1.56
13105581--13105616	7	5.1	7	87	12	56	86	2	11	0	0.68
13105991--13106029	20	2.0	20	89	0	60	43	12	12	30	1.81
13108556--13108749	27	7.1	27	88	0	262	25	13	18	42	1.87
13109078--13109111	18	1.9	17	94	5	59	17	20	17	44	1.87
13110077--13110118	18	2.4	18	80	4	50	23	23	7	45	1.78
13110084--13110135	18	2.9	18	74	5	52	26	25	5	42	1.77
13110950--13111013	26	2.4	27	81	5	85	25	20	4	50	1.67
13110950--13111026	27	2.9	25	79	11	66	27	16	6	49	1.70
13118799--13118886	27	3.2	27	79	7	106	14	21	25	38	1.92
13118799--13118910	54	2.1	53	83	9	138	14	21	23	41	1.89
13124478--13124520	22	2.0	22	90	0	68	37	4	6	51	1.50
13126161--13126294	5	27.0	5	67	7	67	55	15	22	6	1.64
13126189--13126258	20	3.5	20	84	3	88	54	17	20	8	1.68
13126191--13126293	35	2.9	35	80	5	100	51	15	25	7	1.70
13127379--13127450	36	2.0	36	100	0	144	19	16	44	19	1.87
13132663--13132767	53	2.0	53	83	3	131	23	26	16	33	1.96
13134861--13134894	18	1.9	18	88	5	52	11	26	41	20	1.87
13135214--13135290	40	1.9	40	89	0	118	16	9	32	41	1.80
13137998--13138051	17	3.1	17	86	2	63	35	1	11	51	1.48
13138031--13138086	20	2.5	22	86	13	71	33	1	17	46	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13147981--13148096	21	5.4	21	85	6	117	18	22	44	13	1.85
13147993--13148097	42	2.5	42	84	6	131	19	21	45	13	1.84
13150527--13150730	103	2.0	103	96	0	372	35	17	14	32	1.91
13151031--13151079	25	2.0	25	87	0	71	28	4	8	59	1.45
13159648--13159804	43	3.7	42	77	12	160	24	19	25	30	1.98
13179779--13179824	24	1.9	24	86	0	65	36	21	21	19	1.95
13183036--13183076	21	2.0	21	90	0	64	21	19	12	46	1.82
13189591--13189657	20	3.0	20	66	22	53	19	17	29	32	1.95
13189591--13189855	46	5.7	46	73	15	251	20	18	30	30	1.97
13189587--13189850	92	2.8	93	94	0	449	20	18	31	29	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   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   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167