genome.fa.s23.2.7.7.80.10.50.1000.119.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  119  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)
39842681--39842731	25	2.0	25	81	7	59	49	0	0	50	1.00
39846730--39846761	13	2.5	13	94	0	55	50	0	15	34	1.45
39848162--39848233	26	2.8	25	74	15	76	29	16	23	30	1.96
39856687--39856761	39	1.9	39	97	0	141	29	38	16	16	1.90
39858062--39858190	54	2.4	55	82	2	161	37	10	18	32	1.86
39859006--39859082	37	2.1	37	82	2	93	42	22	1	33	1.62
39864688--39864806	57	2.1	58	95	1	213	26	19	10	44	1.82
39870348--39870452	27	3.9	27	86	9	135	34	21	24	19	1.96
39872038--39872119	26	3.2	26	89	0	119	34	24	7	34	1.83
39876775--39876833	31	1.9	30	86	10	84	30	20	1	47	1.60
39886146--39886289	40	3.7	40	70	14	138	37	24	18	20	1.94
39891554--39891766	27	7.9	26	80	11	225	34	20	24	20	1.96
39891572--39891769	54	3.7	54	91	1	317	34	21	24	19	1.96
39897826--39897862	8	4.9	8	93	3	51	13	8	0	78	0.96
39897823--39897868	7	6.7	7	83	14	51	15	6	2	76	1.09
39899428--39899490	6	10.7	6	89	3	74	15	7	3	73	1.20
39900522--39900561	11	3.6	11	82	0	53	22	15	5	57	1.57
39900599--39900653	28	2.0	27	86	13	76	32	0	9	58	1.30
39900781--39900813	11	2.9	12	86	13	52	66	0	0	33	0.92
39906968--39907461	245	2.0	245	100	0	988	34	11	19	34	1.87
39911604--39911656	27	2.0	26	85	10	72	49	9	9	32	1.67
39912769--39912894	59	2.1	59	89	2	191	42	13	11	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39912796--39912897	30	3.4	30	67	12	84	45	13	10	30	1.78
39913144--39913190	20	2.6	18	78	15	51	34	4	4	57	1.38
39913399--39913449	18	2.9	18	75	11	52	47	1	0	50	1.12
39913454--39913487	9	3.6	9	88	11	50	32	0	0	67	0.91
39913400--39913487	10	9.3	10	71	16	53	39	1	1	57	1.13
39924812--39924868	27	2.1	27	100	0	114	56	7	17	19	1.64
39927923--39927951	14	2.1	14	100	0	58	86	0	0	13	0.58
39928745--39928790	21	2.2	21	84	0	56	36	6	4	52	1.47
39928920--39928971	20	2.4	21	81	15	61	32	0	3	63	1.12
39928876--39928981	13	8.8	11	70	17	54	32	2	4	60	1.32
39928920--39929004	25	3.7	23	76	16	70	32	4	4	57	1.40
39928938--39929004	25	2.7	26	83	4	75	32	5	4	56	1.43
39929077--39929135	20	2.7	22	79	7	68	33	6	5	54	1.49
39941291--39941720	73	5.7	73	78	14	381	31	15	18	34	1.92
39941305--39941722	145	2.7	144	78	13	426	31	15	18	33	1.93
39941686--39941896	88	2.4	86	82	6	246	29	13	19	36	1.91
39943744--39943789	21	2.2	21	84	0	56	36	6	4	52	1.47
39943910--39943970	23	2.8	22	80	14	74	32	0	3	63	1.10
39943928--39943984	25	2.3	25	85	11	73	31	1	5	61	1.28
39943872--39943971	13	8.3	11	70	20	51	30	2	5	63	1.27
39944044--39944106	23	2.7	23	80	0	72	31	7	4	55	1.50
39944092--39944163	32	2.3	32	74	11	78	34	2	6	55	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39951962--39952078	44	2.6	46	80	2	130	29	25	13	31	1.94
39953195--39953244	7	7.4	7	80	14	61	4	14	0	82	0.82
39953194--39953256	6	10.2	6	77	19	51	3	15	1	79	0.94
39953717--39953746	11	2.6	12	94	5	53	0	10	6	83	0.81
39955032--39955156	62	2.0	62	90	0	196	28	8	24	38	1.85
39957062--39957095	15	2.3	15	89	0	50	58	8	14	17	1.61
39961109--39961248	58	2.4	58	84	4	176	45	1	3	50	1.28
39961211--39961261	26	2.0	25	84	3	66	52	3	0	43	1.19
39961373--39961411	16	2.4	16	82	0	51	33	28	5	33	1.79
39962972--39963060	39	2.3	39	100	0	178	32	16	7	42	1.77
39965099--39965147	19	2.5	19	83	9	55	55	6	2	36	1.37
39965118--39965245	29	4.4	30	70	16	90	60	2	3	34	1.25
39965118--39965248	10	13.5	10	68	13	53	61	2	3	33	1.24
39965516--39965560	20	2.2	20	88	0	63	22	8	2	66	1.30
39965554--39965607	26	2.1	26	86	6	74	37	1	0	61	1.07
39967891--39968052	43	3.8	43	73	13	129	21	23	22	32	1.98
39967910--39968024	48	2.5	48	79	6	123	23	20	22	33	1.98
39968875--39968903	13	2.1	14	93	6	51	55	10	0	34	1.34
39970390--39970414	7	3.6	7	100	0	50	24	12	32	32	1.91
39970411--39970531	7	17.3	7	71	0	53	23	0	30	46	1.53
39970397--39970437	21	2.0	21	85	0	55	21	4	34	39	1.75
39970326--39970437	14	7.8	14	70	11	57	25	5	29	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39970418--39970493	28	2.7	28	77	4	82	25	0	28	46	1.53
39970446--39970531	35	2.4	34	77	7	91	22	0	30	47	1.51
39970446--39970499	21	2.6	20	82	8	72	24	0	27	48	1.52
39978899--39979099	41	5.0	41	82	3	210	37	22	20	19	1.95
39979332--39979382	15	3.5	15	75	2	50	23	1	27	47	1.63
39979961--39980078	8	15.9	7	87	7	112	66	1	0	31	1.01
39979961--39980069	16	7.1	16	84	8	129	68	1	0	29	1.00
39979981--39980081	31	3.3	31	83	2	132	63	1	0	34	1.06
39979981--39980081	8	13.0	8	91	5	136	63	1	0	34	1.06
39980158--39980250	21	4.7	19	70	17	66	74	1	4	20	1.05
39980155--39980256	28	3.5	29	73	12	102	74	0	4	19	1.06
39983415--39983455	19	2.2	19	86	4	57	21	2	4	70	1.18
39994262--39994308	19	2.5	19	82	6	60	27	19	8	44	1.79
39997098--39997127	6	5.0	6	100	0	60	50	16	33	0	1.46
40001361--40001400	20	2.0	21	90	5	64	40	0	2	57	1.12
40004562--40004846	35	8.2	35	88	1	412	30	24	14	30	1.95
40004562--40004846	104	2.7	105	88	1	430	30	24	14	30	1.95
40004586--40004866	139	2.0	138	86	3	395	30	25	13	30	1.94
40009757--40010110	35	10.2	35	84	3	439	29	12	25	31	1.93
40009757--40010110	173	2.0	174	89	2	534	29	12	25	31	1.93
40011515--40011561	10	4.7	10	77	17	53	55	8	4	31	1.49
40014207--40014237	12	2.6	12	94	0	53	0	25	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40014317--40014347	16	1.9	16	93	0	53	54	3	0	41	1.16
40020044--40020068	8	3.1	8	100	0	50	12	0	0	88	0.53
40020793--40020871	23	3.7	22	67	14	67	40	36	7	15	1.75
40021597--40021660	31	2.1	31	87	0	92	25	21	14	39	1.91
40021880--40022072	50	3.9	48	89	6	287	27	23	21	27	1.99
40021875--40022072	25	8.1	23	84	11	252	27	23	21	28	1.99
40022131--40022187	9	5.9	9	73	15	51	35	21	8	35	1.84
40022119--40022189	20	3.5	20	94	0	124	32	21	11	35	1.89
40022124--40022178	11	5.4	11	70	16	55	30	20	12	36	1.90
40022998--40023031	18	1.9	17	88	5	50	52	38	2	5	1.41
40023430--40023513	27	3.1	27	87	3	116	21	26	20	32	1.98
40023663--40023843	81	2.2	81	87	4	251	30	8	19	40	1.82
40023552--40023843	27	10.8	27	76	4	194	32	10	18	39	1.85
40023836--40023992	27	5.8	27	86	0	206	37	9	24	28	1.87
40023989--40024087	27	3.7	26	82	5	92	30	10	18	41	1.83
40023998--40024102	27	3.9	27	76	9	81	34	9	16	40	1.81
40027249--40027530	146	1.9	147	91	2	469	32	9	17	40	1.82
40031504--40031592	20	4.7	20	68	20	73	66	7	0	25	1.19
40031504--40031623	56	2.2	56	93	4	208	65	10	0	24	1.25
40043360--40043406	23	2.1	22	84	11	60	4	19	0	76	0.95
40043389--40043427	19	2.0	21	90	10	64	10	17	0	71	1.12
40043376--40043417	16	2.5	17	82	14	52	7	16	0	76	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40043369--40043427	19	3.1	19	79	16	61	8	18	0	72	1.09
40044673--40044790	7	16.7	7	67	15	55	61	2	3	33	1.26
40044693--40044773	34	2.4	33	82	11	94	64	1	2	32	1.15
40044673--40044813	14	9.9	14	71	13	83	60	2	4	31	1.29
40048410--40048461	20	2.6	20	82	14	63	36	25	25	13	1.92
40057451--40057563	45	2.5	45	80	5	122	23	21	11	43	1.85
40058525--40058574	15	3.3	15	81	10	66	34	22	8	36	1.83
40058517--40058574	30	1.9	30	96	0	107	34	22	8	34	1.85
40071633--40071732	34	2.9	35	79	8	107	28	22	25	25	1.99
40073876--40073904	15	1.9	15	100	0	58	37	0	20	41	1.53

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