genome.fa.s20.2.7.7.80.10.50.1000.102.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   

This is table  102  of  186  ( 22216 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)
33406721--33406775	29	1.9	29	85	3	76	49	12	1	36	1.52
33411631--33411690	14	3.9	14	75	23	57	28	0	1	70	0.97
33411645--33411695	26	2.0	26	85	14	72	35	0	1	62	1.06
33415506--33415539	18	1.9	17	88	5	50	35	0	2	61	1.11
33425795--33425819	13	1.9	13	100	0	50	40	4	16	40	1.67
33440148--33440320	46	3.7	46	79	13	210	30	29	19	21	1.97
33440156--33440326	93	1.8	93	96	0	315	29	29	20	21	1.98
33444728--33444760	14	2.4	14	100	0	66	51	15	6	27	1.66
33446176--33446360	67	2.8	66	85	4	221	35	17	7	39	1.79
33454449--33454630	48	3.8	48	75	4	197	28	18	26	25	1.98
33454447--33454627	96	1.9	96	92	0	308	29	18	26	25	1.98
33455399--33455469	30	2.3	30	87	2	97	21	19	32	26	1.97
33456981--33457128	43	3.5	41	76	11	138	27	18	23	31	1.97
33476044--33476180	43	3.2	43	77	11	120	26	16	23	34	1.95
33490348--33490381	13	2.5	13	90	9	50	35	2	14	47	1.60
33491689--33491851	40	4.1	40	89	2	240	23	21	27	27	1.99
33497437--33497574	48	2.9	48	84	0	204	27	18	29	24	1.98
33499157--33499248	27	3.4	27	90	0	103	29	17	16	36	1.92
33499200--33499511	27	11.7	27	80	6	305	32	9	19	38	1.85
33499200--33499512	53	5.9	53	81	3	306	31	10	19	38	1.86
33499229--33499511	80	3.5	80	81	4	338	31	9	20	38	1.85
33509501--33509592	28	3.3	27	80	6	103	28	33	14	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33513427--33513489	19	3.2	20	84	13	85	42	7	4	44	1.54
33515735--33515785	10	4.9	11	83	11	56	54	1	5	37	1.36
33515712--33515785	31	2.4	30	82	10	80	55	1	6	36	1.35
33516450--33516940	40	12.2	40	84	3	585	33	24	16	25	1.96
33516450--33516940	81	6.1	80	83	4	612	33	24	16	25	1.96
33516450--33516940	121	4.1	120	83	5	616	33	24	16	25	1.96
33517244--33517310	21	3.2	21	73	0	62	52	23	0	23	1.48
33517229--33517295	28	2.4	28	85	7	82	50	23	0	25	1.49
33517467--33517553	43	2.1	41	85	10	117	26	4	25	43	1.74
33517477--33517562	43	2.0	42	86	4	120	25	6	27	39	1.81
33518633--33518734	40	2.5	40	83	0	123	35	13	20	30	1.92
33522510--33522562	16	3.4	15	87	7	70	15	9	13	62	1.54
33522776--33522882	18	5.8	18	72	12	92	42	15	1	39	1.58
33522782--33522882	9	11.0	9	70	14	73	43	14	1	39	1.57
33527964--33527992	13	2.1	14	93	6	51	37	0	6	55	1.27
33528414--33528475	21	2.9	21	85	2	70	29	17	50	3	1.62
33534596--33534665	27	2.6	27	86	0	95	17	24	22	35	1.95
33534604--33534677	27	2.8	27	87	2	87	16	25	20	37	1.93
33540146--33540253	54	2.0	54	90	5	173	25	11	26	36	1.90
33543886--33543937	16	3.2	16	75	24	56	9	7	0	82	0.84
33543886--33543945	15	3.9	15	84	8	68	11	6	0	81	0.86
33543893--33543942	20	2.5	20	81	15	66	12	6	0	82	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33544049--33544153	42	2.5	42	92	3	167	29	34	11	24	1.91
33544919--33545149	118	2.0	118	92	0	381	22	17	30	29	1.97
33549546--33549654	27	4.1	27	89	1	139	16	23	22	36	1.94
33563612--33563645	16	2.0	18	88	11	54	44	2	0	52	1.16
33568007--33568063	21	2.7	21	83	0	69	26	15	26	31	1.96
33568727--33568780	27	2.1	27	86	6	76	59	14	11	14	1.62
33578018--33578085	22	3.1	22	71	12	77	55	11	4	27	1.55
33577999--33578085	43	2.0	44	97	2	167	59	9	4	26	1.47
33580366--33580490	62	2.0	62	98	0	241	34	19	12	34	1.88
33586090--33586240	27	5.6	27	81	7	171	26	14	28	30	1.95
33586234--33586376	44	3.2	44	63	21	105	27	18	25	29	1.98
33586197--33586380	92	2.0	92	97	0	350	28	17	24	29	1.98
33587777--33588001	40	5.7	40	85	6	246	24	26	22	26	2.00
33587777--33587948	79	2.2	80	86	5	233	25	26	22	26	2.00
33587771--33588001	119	1.9	120	82	7	292	24	26	22	26	2.00
33596780--33596824	19	2.3	20	84	3	56	64	0	2	33	1.06
33606432--33606528	45	2.2	45	84	3	124	23	17	10	48	1.78
33610037--33610080	22	2.0	22	86	0	61	52	0	0	47	1.00
33611095--33611141	21	2.2	20	79	17	51	51	25	0	23	1.49
33626582--33626616	17	2.0	18	94	5	63	22	5	11	60	1.52
33629322--33629391	9	7.8	9	90	0	95	28	10	18	42	1.82
33629562--33629586	12	2.1	12	100	0	50	16	24	36	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33635704--33635748	21	2.1	21	95	0	81	26	31	8	33	1.87
33637324--33637350	14	1.9	14	100	0	54	29	7	25	37	1.83
33638932--33638965	13	2.6	14	90	9	54	2	11	0	85	0.71
33638934--33638966	11	2.8	12	86	9	50	3	12	0	84	0.72
33640921--33640962	20	2.0	20	86	9	57	42	4	16	35	1.69
33641565--33641604	21	1.9	21	94	0	71	40	2	22	35	1.68
33646655--33646739	42	2.0	42	97	0	161	47	18	15	18	1.83
33647638--33647673	6	6.0	6	100	0	72	66	16	16	0	1.25
33650918--33650945	14	2.0	14	100	0	56	35	14	14	35	1.86
33657212--33657245	18	1.9	17	88	5	50	52	11	11	23	1.70
33657233--33657309	18	4.2	18	85	5	84	50	14	16	18	1.78
33657233--33657291	6	9.8	6	88	0	91	50	13	16	18	1.77
33657532--33657583	27	2.0	26	84	3	68	34	21	26	17	1.95
33657828--33658050	27	8.3	27	87	0	266	24	20	18	36	1.95
33657832--33658050	81	2.7	81	90	0	341	24	20	18	36	1.95
33658034--33658132	27	3.7	27	67	15	69	31	8	23	37	1.84
33658087--33658276	27	7.0	27	80	1	193	31	8	21	38	1.84
33659335--33659591	39	6.6	39	82	0	316	16	16	32	34	1.92
33659335--33659591	78	3.3	78	86	0	352	16	16	32	34	1.92
33659336--33659591	117	2.2	117	87	0	350	16	16	32	34	1.92
33663329--33663604	77	3.5	77	81	8	301	44	13	10	31	1.77
33674960--33675005	24	1.9	24	86	0	65	34	15	23	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33684255--33684343	43	2.0	44	89	6	137	47	11	11	30	1.74
33685095--33685144	22	2.3	22	89	3	75	20	34	32	14	1.92
33687017--33687061	20	2.2	20	88	0	63	37	11	2	48	1.51
33689131--33689217	44	2.0	44	88	0	129	48	5	13	32	1.66
33698579--33698640	26	2.3	27	78	10	74	38	27	8	25	1.84
33698746--33698859	27	4.2	27	81	5	133	18	21	22	36	1.95
33705889--33705947	23	2.6	22	75	19	59	22	13	22	42	1.88
33707246--33707329	38	2.2	38	82	6	98	51	5	7	35	1.54
33708383--33708439	30	1.9	30	92	0	96	19	21	22	36	1.95
33708332--33708531	81	2.5	81	93	0	337	24	24	18	34	1.96
33708464--33708526	30	2.1	30	87	0	90	19	23	19	38	1.93
33717376--33717444	21	3.3	21	87	2	95	55	8	24	11	1.64
33719226--33719277	27	1.9	27	81	14	63	38	7	21	32	1.82
33719895--33720070	70	2.3	75	82	11	193	40	1	19	38	1.59
33719940--33720090	79	1.9	78	83	5	194	41	1	20	37	1.61
33720251--33720317	34	1.9	36	88	11	104	38	1	23	35	1.64
33720248--33720323	18	4.4	17	76	14	75	40	2	23	32	1.69
33720249--33720329	34	2.4	32	81	18	94	39	2	23	34	1.68
33720876--33720910	12	2.9	12	100	0	70	42	0	22	34	1.54
33721751--33721795	21	2.1	21	84	8	56	24	24	17	33	1.96
33725488--33725541	26	2.1	26	100	0	108	35	27	7	29	1.84
33728859--33728893	17	2.0	18	88	5	54	14	31	37	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33728859--33728904	18	2.6	17	83	10	58	13	23	43	19	1.86
33750808--33750896	45	2.0	44	86	6	126	42	15	16	23	1.87
33761363--33761441	36	2.2	36	95	0	140	21	25	7	45	1.78
33766922--33766973	19	2.9	17	75	18	52	59	1	7	30	1.36
33770428--33770484	29	2.0	29	100	0	114	33	10	21	35	1.87
33771114--33771153	21	1.9	21	89	0	62	30	12	32	25	1.92
33773135--33773186	19	2.9	17	75	18	52	59	1	7	30	1.36
33782936--33782968	13	2.6	13	90	4	50	39	0	12	48	1.40
33793496--33793541	17	2.7	18	76	6	51	21	17	15	45	1.85
33812265--33812327	33	1.9	33	93	0	108	50	17	3	28	1.61

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   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186