genome.fa.s23.2.7.7.80.10.50.1000.36.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  36  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)
10987467--10987497	16	1.9	16	100	0	62	35	19	12	32	1.90
10994917--10994962	20	2.3	20	88	7	67	15	26	17	41	1.88
10999907--11000101	40	4.9	39	75	5	167	33	15	27	23	1.95
10999907--11000103	80	2.5	79	80	3	198	33	16	27	22	1.95
11000008--11000071	20	3.2	20	73	4	58	25	14	32	28	1.94
11002985--11003038	21	2.6	22	82	11	69	55	5	3	35	1.41
11002985--11003026	19	2.1	21	86	8	61	52	4	4	38	1.44
11003167--11003206	15	2.4	16	84	16	55	62	2	0	35	1.09
11003180--11003249	23	3.0	23	73	10	63	55	7	1	35	1.36
11003150--11003250	43	2.4	41	74	12	105	58	5	1	33	1.34
11003273--11003329	27	2.1	28	83	3	71	49	7	8	35	1.61
11003396--11003429	9	3.6	10	88	11	54	52	5	0	41	1.25
11003475--11003527	24	2.3	23	87	9	74	56	5	1	35	1.34
11005502--11005707	90	2.3	90	100	0	412	36	18	17	27	1.94
11005739--11005926	76	2.5	76	88	6	267	32	19	14	32	1.93
11015692--11015898	39	5.3	39	89	0	315	31	28	20	19	1.97
11018563--11018660	44	2.2	44	92	1	169	14	28	8	47	1.72
11021787--11021820	17	1.9	18	94	5	61	58	0	5	35	1.22
11032810--11032867	25	2.4	24	75	18	57	8	39	1	50	1.43
11035487--11035537	23	2.2	23	78	0	57	39	0	1	58	1.09
11037835--11037896	23	2.6	24	80	14	83	56	4	0	38	1.21
11038374--11038474	43	2.3	44	83	5	134	38	7	9	43	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11038885--11038909	10	2.5	10	100	0	50	0	8	0	92	0.40
11043813--11043868	11	5.1	11	80	4	60	48	0	0	51	1.00
11046259--11046286	14	2.0	14	100	0	56	35	21	14	28	1.92
11057019--11057083	19	3.3	20	76	22	57	47	3	0	49	1.17
11057043--11057083	20	2.0	21	86	13	59	46	2	0	51	1.14
11059206--11059253	16	2.9	17	70	17	55	27	14	33	25	1.94
11062536--11062665	6	20.2	6	71	20	70	73	1	19	5	1.10
11062538--11062655	21	5.9	20	71	19	63	72	1	19	5	1.13
11062531--11062584	26	2.1	25	83	10	65	72	0	20	7	1.08
11062536--11062665	20	6.7	18	68	23	70	73	1	19	5	1.10
11067946--11068033	40	2.4	37	76	14	92	62	2	0	35	1.08
11067957--11068006	17	2.8	18	78	9	57	66	4	0	30	1.10
11067986--11068043	30	1.9	30	89	6	91	62	0	1	36	1.06
11072925--11073097	86	2.0	86	98	0	337	33	13	17	34	1.90
11085601--11085663	31	2.0	32	84	9	85	47	0	4	47	1.23
11087398--11087483	45	1.9	45	87	0	127	20	19	18	40	1.91
11087691--11087855	18	9.2	18	71	15	117	32	10	17	39	1.84
11087691--11087809	54	2.2	54	82	8	136	32	10	19	36	1.87
11087797--11087845	19	2.7	19	84	6	66	34	10	12	42	1.76
11087740--11087865	54	2.3	55	82	5	141	32	11	17	38	1.85
11087679--11087943	18	14.3	18	69	13	108	33	10	17	38	1.84
11089516--11090522	47	21.6	47	96	1	1658	18	23	14	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11107336--11107394	25	2.3	26	81	18	72	64	5	0	30	1.15
11108250--11108595	102	3.4	102	99	0	674	28	23	13	34	1.93
11111544--11111573	13	2.3	13	94	0	51	30	6	6	56	1.51
11119295--11119451	43	3.7	43	76	6	142	25	20	27	26	1.99
11129300--11129333	15	2.2	16	89	5	52	32	2	0	64	1.08
11133168--11133251	42	2.0	42	100	0	168	38	11	11	38	1.79
11135732--11135766	13	2.6	14	81	9	54	48	17	17	17	1.81
11140213--11140317	26	4.0	26	93	0	183	36	23	7	32	1.83
11142984--11143059	26	2.9	27	72	20	72	39	1	2	56	1.21
11144769--11144819	22	2.3	21	83	12	59	62	1	0	35	1.06
11146486--11146742	55	4.8	56	80	13	278	35	17	24	22	1.96
11146493--11146695	108	1.9	109	89	6	322	33	18	24	23	1.97
11149974--11150077	33	3.2	32	77	8	95	54	2	1	40	1.26
11149974--11150064	33	2.8	33	80	5	105	54	3	2	39	1.29
11150685--11150718	15	2.3	15	90	10	52	32	2	0	64	1.08
11152545--11152573	2	14.5	2	100	0	58	51	48	0	0	1.00
11153410--11153452	19	2.3	18	84	4	50	76	0	16	6	0.99
11153420--11153456	9	4.0	9	89	3	56	83	0	10	5	0.79
11158366--11158417	22	2.4	22	86	0	68	25	13	30	30	1.94
11173843--11173928	43	2.0	43	88	0	127	20	23	1	54	1.51
11188955--11188995	22	1.9	21	85	5	55	68	9	19	2	1.29
11190074--11190108	12	2.9	12	91	0	52	17	25	17	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11190245--11190283	18	2.2	18	90	0	60	43	10	17	28	1.82
11190251--11190293	18	2.4	19	80	11	54	46	9	13	30	1.75
11192056--11192096	21	1.9	22	90	5	66	12	9	7	70	1.33
11192058--11192107	22	2.3	21	83	10	57	16	10	4	70	1.30
11192291--11192331	18	2.2	20	82	8	50	26	0	7	65	1.18
11194822--11194896	37	2.0	37	97	0	141	28	24	17	30	1.97
11201072--11201096	12	2.1	12	100	0	50	28	16	16	40	1.89
11208455--11208492	20	1.9	20	88	0	58	28	15	18	36	1.92
11208494--11208539	16	2.9	17	90	6	53	50	2	17	30	1.58
11208709--11208749	14	3.1	14	79	10	50	58	0	0	41	0.98
11208702--11208841	58	2.4	57	84	4	192	53	2	0	44	1.12
11213065--11213115	25	2.2	23	82	10	59	62	9	0	27	1.26
11213344--11213423	11	7.4	11	79	10	85	57	30	11	1	1.41
11213344--11213424	32	2.5	33	85	4	101	58	29	11	1	1.41
11215296--11215404	55	2.0	55	98	0	209	32	15	10	42	1.80
11227551--11227781	122	1.9	122	84	6	317	42	11	17	28	1.84
11227879--11227997	61	2.0	61	87	0	175	36	11	37	14	1.83
11229143--11229232	45	2.0	45	91	0	144	33	20	20	26	1.97
11234355--11234386	17	1.9	16	93	6	55	46	0	18	34	1.49
11237044--11237088	22	2.0	22	87	8	65	35	6	11	46	1.66
11237474--11237505	16	2.1	16	94	5	57	56	6	0	37	1.25
11237607--11238122	109	4.7	109	84	9	701	50	16	1	31	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11237492--11238212	217	3.3	218	83	10	832	51	16	1	31	1.53
11237493--11238234	329	2.3	320	85	9	1045	51	16	1	31	1.53
11238378--11238439	3	20.3	3	93	3	106	0	35	0	64	0.94
11238703--11238746	23	1.9	23	86	9	63	61	2	0	36	1.09
11239329--11239385	29	1.9	30	86	10	82	50	8	1	38	1.44
11245300--11245331	5	6.2	5	92	7	55	21	3	0	75	0.95
11246233--11246279	25	1.9	24	83	12	60	21	14	12	51	1.76
11248335--11248385	19	2.7	19	93	6	86	39	1	23	35	1.66
11249055--11249116	26	2.4	26	75	0	70	19	20	20	38	1.93
11249205--11249252	24	2.0	23	84	4	60	16	22	20	39	1.92
11249262--11249309	25	1.9	25	86	0	69	20	27	18	33	1.96
11259919--11259943	13	1.9	13	100	0	50	48	20	32	0	1.50
11268718--11269527	405	2.0	403	93	0	1386	39	15	18	25	1.91
11270189--11270250	31	2.0	31	96	0	115	46	19	14	19	1.83
11288490--11288535	23	2.0	23	83	12	58	69	6	6	17	1.32
11296252--11296307	18	3.2	18	75	14	64	48	0	1	50	1.11
11299651--11299678	14	2.0	14	100	0	56	28	7	14	50	1.69
11309326--11309391	22	2.9	22	79	6	69	28	22	3	45	1.67
11321028--11321127	47	2.1	47	84	0	128	37	25	14	24	1.92
11331903--11331935	17	2.0	17	94	5	59	36	15	0	48	1.45
11332216--11332442	46	5.0	46	85	1	276	21	24	14	40	1.90
11332231--11332439	91	2.3	92	86	0	276	21	24	12	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11343277--11343339	30	2.1	30	85	11	85	52	15	17	14	1.75
11343277--11343339	15	4.2	15	77	0	72	52	15	17	14	1.75
11352909--11352935	13	2.1	13	100	0	54	22	37	25	14	1.93
11360215--11360242	12	2.3	12	100	0	56	57	0	0	42	0.99
11364165--11364203	18	2.1	18	85	4	51	35	7	23	33	1.83
11365097--11365139	23	1.9	22	85	4	59	11	6	18	62	1.50
11365162--11365196	13	2.7	13	100	0	70	37	0	8	54	1.31
11366392--11366438	23	2.0	23	95	0	85	44	17	2	36	1.60
11369614--11369732	24	5.0	24	89	5	179	29	21	21	28	1.98
11369926--11369990	31	2.1	31	91	0	103	40	15	21	23	1.91

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