genome.fa.s20.2.7.7.80.10.50.1000.43.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  43  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)
12798859--12798899	21	2.0	21	90	0	64	19	29	21	29	1.98
12803895--12803954	31	1.9	31	87	12	88	43	6	11	38	1.68
12807089--12807373	144	2.0	143	93	0	489	30	11	19	39	1.86
12808237--12808286	25	2.0	25	92	0	82	24	6	34	36	1.80
12809086--12809141	29	1.9	29	88	0	85	33	0	10	55	1.35
12810255--12810313	29	2.0	30	93	3	102	33	1	10	54	1.44
12816479--12816572	42	2.2	42	86	0	134	18	22	36	23	1.95
12818721--12818747	5	5.4	5	100	0	54	18	0	0	81	0.69
12819736--12819768	16	2.1	16	100	0	66	18	0	33	48	1.48
12823314--12823353	12	3.3	12	92	0	62	55	5	0	40	1.22
12825205--12825368	79	2.0	81	86	4	226	42	6	9	42	1.62
12828217--12828311	31	3.2	29	79	16	97	43	10	10	35	1.74
12830748--12830791	20	2.2	21	84	11	58	65	2	0	31	1.05
12835782--12835874	10	9.8	9	72	14	71	62	4	0	33	1.15
12836301--12836502	9	21.4	9	67	18	58	36	1	3	58	1.24
12836301--12836375	27	2.6	28	83	10	89	36	2	4	57	1.32
12836389--12836480	18	5.1	18	68	6	69	35	1	3	59	1.21
12837547--12837584	14	2.6	15	84	15	53	52	2	0	44	1.14
12837550--12837580	16	1.9	16	93	0	53	48	3	0	48	1.17
12850784--12850815	4	7.8	4	96	3	55	78	21	0	0	0.76
12857725--12857785	30	2.0	30	96	0	113	32	13	8	45	1.72
12858744--12858821	39	2.0	39	97	0	147	28	17	8	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12859623--12859673	23	2.2	24	82	10	61	74	1	19	3	1.07
12864160--12864232	5	15.0	5	94	5	132	39	0	0	60	0.97
12864845--12864869	12	2.1	12	100	0	50	16	24	20	40	1.91
12864847--12864953	45	2.4	45	88	3	162	20	18	19	41	1.91
12864937--12864978	6	6.8	6	91	2	57	19	21	16	42	1.89
12869821--12869882	30	2.1	30	90	0	97	30	14	27	27	1.95
12869851--12869925	38	2.0	38	94	0	132	33	12	25	29	1.92
12870533--12870732	56	3.6	56	93	0	310	25	17	24	32	1.97
12874812--12874847	14	2.6	14	90	0	54	80	2	0	16	0.83
12875437--12875483	3	15.7	3	100	0	94	31	0	0	68	0.90
12875595--12875634	18	2.3	17	86	4	53	42	5	0	52	1.23
12875748--12875796	20	2.5	20	75	0	53	38	4	2	55	1.31
12875893--12875942	15	3.3	15	83	5	57	38	2	6	54	1.37
12875893--12875943	13	4.1	13	75	10	52	37	1	5	54	1.36
12875922--12876031	26	4.5	26	67	18	74	34	9	3	52	1.50
12877073--12877131	27	2.2	28	84	9	86	44	3	3	49	1.36
12877172--12877209	20	1.9	20	94	0	67	34	10	0	55	1.34
12877828--12877867	19	2.1	19	86	9	55	47	0	10	42	1.37
12878028--12878057	13	2.3	13	94	0	51	46	0	0	53	1.00
12879065--12879116	24	2.2	24	89	0	77	55	9	1	32	1.43
12880286--12880333	19	2.5	20	83	10	55	37	0	4	58	1.18
12880767--12880821	21	2.5	22	73	2	58	45	1	5	47	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12881222--12881281	29	2.0	31	83	6	79	51	8	11	28	1.67
12881314--12881347	18	1.9	17	88	5	50	20	2	8	67	1.31
12882436--12882478	11	4.3	10	78	21	54	27	0	2	69	1.00
12885999--12886029	15	2.1	15	93	0	53	9	35	0	54	1.33
12890035--12890066	4	7.8	4	93	6	55	28	0	21	50	1.49
12907837--12907931	25	3.8	25	92	0	154	32	18	23	25	1.97
12907837--12907955	25	4.7	25	86	2	121	30	20	24	25	1.99
12928525--12928583	29	2.0	29	83	9	75	54	15	3	27	1.57
12933182--12933240	24	2.5	22	77	17	66	55	5	6	32	1.48
12933179--12933300	26	4.8	24	69	21	72	57	2	8	31	1.41
12933728--12933808	3	28.3	3	70	20	50	64	2	4	28	1.27
12933734--12933812	26	3.1	25	75	18	74	65	1	6	26	1.24
12935645--12935680	13	2.6	14	91	4	56	66	11	11	11	1.45
12935708--12935909	76	2.7	76	88	1	298	36	22	13	27	1.92
12935838--12936091	89	2.9	87	87	5	350	37	21	16	24	1.93
12935985--12936019	14	2.5	14	95	0	61	54	8	20	17	1.68
12935999--12936158	73	2.2	72	89	3	248	32	20	18	28	1.96
12945766--12945864	51	2.0	51	84	6	130	35	4	2	58	1.28
12946383--12946454	35	2.2	34	85	9	96	38	4	9	47	1.56
12946396--12946471	17	4.3	18	70	11	68	40	5	6	47	1.52
12951527--12951565	19	2.1	19	90	0	60	48	0	2	48	1.15
12957359--12957412	20	2.7	20	78	13	58	50	0	1	48	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12957359--12957412	21	2.7	20	81	13	58	50	0	1	48	1.11
12966610--12966678	22	3.1	22	74	13	61	21	13	2	62	1.44
12966909--12966941	11	2.9	12	86	13	52	66	0	0	33	0.92
12970276--12970481	96	2.1	99	83	7	262	39	0	17	42	1.56
12970457--12970486	15	2.0	15	93	0	51	16	0	36	46	1.47
12970562--12971091	126	4.2	126	92	0	819	33	17	21	26	1.96
12974103--12974483	116	3.3	116	96	0	690	47	9	3	39	1.53
12976624--12976692	30	2.3	31	89	2	104	40	0	30	28	1.57
12976630--12976679	20	2.5	19	80	9	55	40	0	32	28	1.57
12976630--12976686	11	5.5	10	79	12	62	40	0	29	29	1.57
12986892--12986939	21	2.2	22	82	14	64	47	0	16	35	1.47
12987622--12987866	33	7.5	33	81	3	210	35	12	22	30	1.91
12987786--12987887	33	3.1	33	81	1	125	29	15	25	29	1.96
12993643--12994357	40	17.9	40	95	0	1223	23	29	23	22	1.99
13001892--13001981	40	2.2	40	78	3	101	53	3	3	40	1.34
13002080--13002138	26	2.2	27	96	3	111	45	3	0	50	1.18
13002994--13003036	21	2.0	21	100	0	86	58	0	13	27	1.37
13009099--13009143	20	2.2	20	84	7	56	28	15	4	51	1.63
13009276--13009318	5	8.6	5	100	0	86	39	0	0	60	0.97
13020759--13020817	22	2.4	24	72	18	59	50	5	5	38	1.46
13022173--13022219	21	2.4	19	82	10	58	27	2	23	46	1.63
13025995--13026076	29	2.9	27	69	7	74	40	1	9	48	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13025996--13026111	57	2.0	57	90	6	182	44	1	10	43	1.48
13036783--13037010	120	1.9	121	98	0	440	41	9	12	35	1.76
13037272--13037330	21	2.8	22	85	7	70	23	0	6	69	1.12
13037301--13037349	26	2.0	24	88	8	71	32	0	4	63	1.13
13037304--13037361	25	2.3	26	82	5	75	29	0	3	67	1.07
13044512--13044610	51	1.9	51	80	8	112	39	14	26	20	1.90
13047021--13047106	44	2.0	41	91	6	136	36	2	36	22	1.67
13050674--13050708	17	2.1	17	100	0	70	14	22	5	57	1.59
13053300--13053703	127	3.2	123	79	8	393	36	18	16	27	1.93
13054388--13054536	74	2.0	76	94	2	266	55	2	15	26	1.53
13055095--13055137	21	2.0	21	82	8	52	27	11	4	55	1.55
13056088--13056272	44	4.2	44	71	19	152	30	20	18	30	1.96
13056237--13056808	223	2.6	222	83	7	635	27	22	19	30	1.98
13056105--13056652	134	4.1	132	74	12	492	27	22	18	30	1.97
13056176--13057166	134	7.4	134	77	13	668	28	21	18	31	1.97
13056174--13056910	45	16.5	45	70	16	389	27	22	18	30	1.97
13056399--13057028	223	2.8	222	84	8	689	29	21	18	31	1.97
13056596--13057179	134	4.4	132	84	5	727	28	21	18	31	1.97
13057064--13057205	45	3.2	44	78	10	130	30	21	18	30	1.97
13057275--13057401	64	2.0	64	89	3	193	34	15	18	30	1.93
13068416--13068735	127	2.6	123	84	4	381	35	19	15	29	1.93
13068456--13068841	127	3.1	122	79	5	403	37	18	15	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13069367--13069446	41	2.0	40	92	2	133	55	10	7	27	1.60
13072019--13072046	12	2.3	12	100	0	56	67	17	7	7	1.37
13075100--13075147	24	2.0	24	88	8	71	43	0	2	54	1.12
13075089--13075153	32	2.0	34	87	6	98	41	0	1	56	1.08
13075062--13075145	18	4.8	18	67	17	52	41	1	2	54	1.21
13080003--13080201	74	2.7	72	79	6	211	33	11	20	34	1.89
13088275--13088326	26	2.0	26	96	0	95	32	11	32	23	1.90
13091973--13092007	15	2.3	15	90	0	52	42	11	17	28	1.83
13099501--13099564	6	10.3	6	76	17	60	14	4	3	78	1.04
13099528--13099565	11	3.4	11	92	3	58	18	0	2	78	0.86

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