genome.fa.s23.2.7.7.80.10.50.1000.131.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  131  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)
43834613--43834646	11	3.1	11	95	0	59	64	11	0	23	1.26
43834919--43834984	27	2.5	26	73	7	69	13	30	34	21	1.92
43841794--43842025	56	4.1	56	97	0	437	46	9	21	22	1.80
43857723--43857805	42	2.0	42	85	0	112	21	19	25	33	1.97
43860207--43860311	54	2.0	54	92	3	178	22	13	4	59	1.53
43860571--43860710	7	19.6	7	71	12	63	42	36	0	20	1.53
43860601--43860738	7	19.3	7	75	7	62	44	32	0	23	1.54
43860588--43860787	21	9.3	22	68	13	58	44	33	0	22	1.57
43860598--43860738	14	9.9	14	70	10	70	43	33	0	22	1.54
43861146--43861247	40	2.6	38	76	14	91	37	17	17	27	1.93
43861737--43861827	38	2.3	39	86	3	121	23	20	20	35	1.96
43865135--43865179	19	2.4	19	88	7	65	26	22	6	44	1.77
43871168--43871372	30	6.8	30	96	0	374	22	3	49	24	1.65
43872746--43872921	71	2.5	70	87	3	230	34	23	14	28	1.93
43874414--43874440	5	5.4	5	100	0	54	18	0	0	81	0.69
43877674--43877883	47	4.4	47	88	4	296	32	8	30	28	1.86
43877781--43877855	22	3.3	22	65	17	62	32	10	30	26	1.90
43877685--43877862	96	1.9	95	91	2	295	30	9	32	27	1.89
43877674--43877883	96	2.2	94	84	8	289	32	8	30	28	1.86
43887183--43887297	41	2.8	41	93	0	194	30	20	21	26	1.98
43887514--43887577	33	2.0	32	90	3	101	26	9	25	39	1.86
43887521--43887594	33	2.3	33	80	2	87	28	8	25	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43892656--43893626	75	13.1	73	89	4	1199	31	22	16	28	1.96
43892656--43893608	220	4.3	220	87	5	1267	31	23	16	28	1.96
43892656--43893608	148	6.4	148	86	6	1216	31	23	16	28	1.96
43894542--43894614	37	2.0	37	88	0	110	24	35	10	28	1.90
43921902--43921957	21	2.6	22	75	8	62	32	0	26	41	1.56
43930898--43931032	38	3.6	38	83	0	162	32	14	17	36	1.89
43935511--43935541	12	2.6	12	89	0	53	77	0	22	0	0.77
43935998--43936072	38	2.0	38	100	0	150	50	5	9	34	1.57
43936801--43936850	24	2.0	25	85	11	68	38	0	0	62	0.96
43937809--43937845	17	2.2	18	85	9	51	51	0	0	48	1.00
43940999--43941047	21	2.3	22	85	3	64	26	2	6	65	1.27
43947079--43947169	19	4.9	19	89	8	143	37	10	15	36	1.83
43947084--43947156	36	2.1	35	97	2	137	35	10	16	36	1.84
43947457--43947493	18	2.1	17	90	5	56	32	0	0	67	0.91
43959223--43959438	78	2.8	77	89	1	315	31	19	23	25	1.98
43959461--43959586	45	2.8	45	87	4	175	32	10	29	27	1.90
43959959--43960014	18	3.5	15	81	18	60	37	10	16	35	1.83
43959957--43960035	35	2.2	37	86	13	121	37	10	16	35	1.82
43959957--43960028	19	3.9	19	89	10	123	37	11	15	36	1.83
43959957--43960051	17	4.8	22	84	12	79	36	9	15	37	1.80
43966656--43966705	26	1.9	26	95	0	91	36	22	20	22	1.96
43967673--43967743	33	2.2	32	82	12	83	22	8	21	47	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43969519--43969599	19	4.2	19	96	3	144	37	9	17	35	1.83
43990956--43991042	3	28.0	3	69	19	54	59	5	5	28	1.43
43991328--43991415	19	4.5	19	72	22	58	68	1	30	0	0.97
43991328--43991404	26	3.2	24	82	8	79	67	1	31	0	0.99
43991344--43991415	15	4.8	15	73	14	51	72	0	27	0	0.85
43991376--43991418	15	2.8	16	89	7	70	72	0	27	0	0.85
44015426--44015607	46	4.0	46	87	1	231	23	23	13	39	1.90
44035415--44035614	92	2.2	92	100	0	400	38	22	13	26	1.91
44036187--44036226	15	2.5	15	84	8	53	70	2	0	27	1.01
44037957--44038117	89	1.8	89	88	5	247	24	21	20	32	1.97
44037883--44038448	220	2.6	220	91	0	891	26	21	18	33	1.96
44038324--44038406	43	1.9	43	85	2	112	24	22	18	34	1.96
44040877--44041270	197	2.0	197	100	0	788	26	24	17	30	1.97
44046195--44046511	47	6.7	47	94	0	535	32	8	30	29	1.86
44046630--44046708	37	2.1	37	86	4	106	25	18	29	26	1.98
44054381--44054418	15	2.5	15	83	8	51	71	2	0	26	1.00
44057733--44057792	31	1.9	31	83	6	77	38	13	11	36	1.81
44059610--44059657	25	2.0	23	84	8	60	45	6	12	35	1.67
44062363--44062410	22	2.2	21	82	10	53	39	18	4	37	1.70
44067863--44067970	17	5.9	19	85	10	145	36	15	12	36	1.85
44067854--44067936	17	4.5	19	65	34	56	34	14	10	39	1.81
44067863--44067959	35	2.7	36	91	3	160	37	14	12	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44068330--44069144	206	3.9	207	90	1	1285	29	23	17	29	1.97
44068330--44069146	413	2.0	413	93	0	1402	29	23	17	29	1.97
44072303--44072410	17	5.9	19	85	10	145	36	15	12	36	1.85
44072294--44072376	17	4.5	19	65	34	56	34	14	10	39	1.81
44072303--44072399	35	2.7	36	91	3	160	37	14	12	36	1.84
44072770--44073584	206	3.9	207	90	0	1247	29	23	17	29	1.97
44072770--44073584	413	2.0	413	90	0	1290	29	23	17	29	1.97
44073537--44073632	48	2.0	48	95	0	174	23	26	21	28	1.99
44073852--44073978	43	3.0	42	70	15	109	22	22	23	32	1.98
44074916--44074963	7	6.6	7	81	13	53	4	12	0	83	0.79
44074923--44074980	22	2.7	22	82	15	68	5	12	1	81	0.94
44074917--44074970	22	2.5	22	88	5	76	5	11	0	83	0.80
44074916--44074982	20	3.3	19	80	15	55	4	11	1	82	0.89
44080736--44080914	35	5.0	36	87	6	249	37	13	11	37	1.80
44080736--44080914	53	3.3	54	88	3	256	37	13	11	37	1.80
44080736--44080906	88	1.9	90	93	2	301	37	12	11	38	1.80
44088596--44089463	431	2.0	431	98	0	1673	32	13	21	32	1.92
44091110--44091146	18	2.1	18	100	0	74	40	10	0	48	1.38
44096933--44096991	30	1.9	31	82	3	75	22	11	6	59	1.56
44097259--44097364	15	7.7	15	66	22	63	37	0	2	59	1.12
44097254--44097323	23	3.0	23	74	15	72	34	0	2	62	1.10
44097254--44097336	27	3.1	27	77	18	93	36	0	2	61	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44097496--44097747	125	2.0	126	90	4	398	29	9	13	47	1.74
44102331--44102443	38	2.9	38	88	2	145	23	23	27	25	2.00
44102347--44102449	38	2.7	38	90	0	152	22	23	26	28	1.99
44102426--44102657	43	5.4	43	95	1	396	12	23	34	29	1.92
44113496--44113583	44	2.0	43	86	6	124	32	15	22	28	1.95
44113693--44113850	44	3.5	44	80	4	147	32	15	25	25	1.96
44113822--44113952	41	2.9	47	64	15	114	28	18	24	29	1.98
44113826--44114021	87	2.3	87	86	7	269	31	16	22	29	1.96
44114351--44114459	44	2.5	44	90	3	166	33	12	25	28	1.93
44113394--44114459	221	4.8	219	82	5	1135	31	16	23	28	1.96
44114673--44114706	11	3.0	11	86	4	50	82	2	0	14	0.79
44116022--44116078	20	2.9	18	74	20	53	43	1	1	52	1.21
44116027--44116076	20	2.5	19	81	15	57	42	2	2	54	1.23
44116121--44116175	18	3.0	18	74	12	58	34	0	3	61	1.13
44116351--44116596	125	2.0	125	95	0	438	30	10	11	47	1.74
44120420--44120529	42	2.6	43	82	2	125	28	18	25	28	1.98
44124988--44125137	62	2.4	62	84	1	192	23	24	30	22	1.99
44131458--44131903	229	1.9	229	85	2	610	26	19	19	34	1.95
44144965--44145231	104	2.6	104	94	0	462	18	20	30	30	1.96
44148073--44148115	18	2.4	18	96	0	77	46	2	0	51	1.13
44148153--44148188	18	2.0	18	88	0	54	61	8	0	30	1.26
44148655--44148711	25	2.3	25	96	0	105	52	3	3	40	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44151906--44152061	79	2.0	79	100	0	312	26	30	26	16	1.97
44155779--44155923	19	7.7	19	80	8	145	38	15	8	37	1.77
44155790--44155923	36	3.6	37	85	8	157	37	15	7	39	1.76
44155790--44155923	55	2.4	55	89	2	205	37	15	7	39	1.76
44158935--44158966	15	2.1	16	94	5	57	37	3	18	40	1.67
44161919--44161988	33	2.2	30	80	9	77	17	27	35	20	1.94
44164671--44164720	3	16.7	3	95	0	91	66	2	0	32	1.03
44167764--44167806	22	2.0	22	95	0	77	39	4	11	44	1.62
44168202--44168258	28	1.9	30	82	10	73	35	5	8	50	1.56
44175549--44175606	29	2.0	30	86	3	82	22	37	25	13	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