genome.fa.s13.2.7.7.80.10.50.1000.184.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  184  of  199  ( 23770 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)
53640855--53640890	18	2.1	17	94	5	63	36	8	11	44	1.70
53644667--53644793	45	2.8	45	91	0	209	22	54	7	14	1.66
53654319--53654365	15	3.1	16	81	9	62	34	2	0	63	1.06
53656043--53656093	6	8.5	6	86	0	66	19	5	43	31	1.75
53657492--53657517	2	13.0	2	100	0	52	50	0	0	50	1.00
53667091--53667219	43	3.0	42	77	13	129	24	19	27	29	1.98
53671253--53671287	2	17.5	2	93	0	61	45	0	0	54	0.99
53681990--53682030	3	13.7	3	100	0	82	65	0	34	0	0.93
53682162--53682199	3	12.7	3	100	0	76	0	34	0	65	0.93
53684063--53684114	21	2.5	21	77	0	59	34	34	5	25	1.80
53686548--53686590	21	2.0	21	90	0	68	67	2	0	30	1.03
53686856--53686886	2	15.5	2	100	0	62	51	0	0	48	1.00
53689176--53689238	17	3.5	17	71	12	63	49	14	3	33	1.59
53689170--53689241	37	1.9	37	97	0	135	47	16	2	33	1.61
53689174--53689258	37	2.3	37	88	8	120	48	15	3	32	1.62
53689371--53689447	38	2.0	38	94	0	136	18	2	25	53	1.57
53690676--53690804	68	1.9	70	85	6	183	29	0	22	47	1.57
53691382--53691411	2	15.0	2	92	0	51	53	0	0	46	1.00
53691941--53692079	74	1.9	74	81	13	169	26	19	24	29	1.98
53692110--53692558	147	3.1	147	77	3	343	26	15	22	35	1.94
53692211--53692558	146	2.4	147	81	3	380	26	15	22	35	1.94
53693213--53693253	21	2.0	21	100	0	82	12	14	24	48	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53694752--53694904	13	11.5	13	70	9	103	39	9	4	46	1.56
53694742--53694914	53	3.2	53	87	4	249	41	9	4	45	1.55
53695207--53695338	28	4.5	28	73	10	95	44	18	3	33	1.67
53695284--53695543	9	29.8	9	71	17	183	46	21	1	30	1.62
53695313--53695516	34	5.9	34	74	16	161	46	21	1	30	1.60
53695318--53695416	43	2.3	45	75	10	107	49	22	1	27	1.56
53695313--53695538	25	8.8	26	74	16	154	46	21	1	30	1.61
53701406--53701556	43	3.5	42	79	3	149	27	17	27	27	1.97
53701711--53701756	23	2.0	23	100	0	92	43	34	8	13	1.74
53702500--53702551	22	2.4	22	80	6	61	55	9	15	19	1.67
53704090--53704160	24	3.1	22	75	16	72	19	11	5	63	1.47
53715014--53715058	22	2.0	22	100	0	90	44	0	13	42	1.43
53715226--53715297	28	2.6	28	84	8	85	44	0	4	51	1.20
53715432--53715477	16	2.9	16	93	0	83	21	34	6	36	1.80
53719055--53719088	17	2.1	17	88	5	52	52	5	11	29	1.61
53720890--53720929	14	2.9	14	84	0	53	32	7	17	42	1.77
53720913--53720952	20	2.0	20	90	0	62	27	10	12	50	1.72
53720898--53720964	34	1.9	35	87	3	100	32	8	11	46	1.72
53721638--53721693	16	3.5	16	78	9	69	48	3	17	30	1.65
53722013--53722053	13	3.2	12	80	12	55	58	0	0	41	0.98
53721903--53722142	120	2.0	119	95	2	428	52	4	0	42	1.27
53722017--53722088	19	3.1	23	74	25	64	56	1	0	41	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53727076--53727203	63	2.0	62	83	5	159	19	17	26	36	1.94
53727237--53727301	26	2.5	26	87	2	87	23	20	20	36	1.95
53728994--53729172	26	7.2	26	70	12	101	38	21	20	19	1.93
53729630--53729718	45	2.0	45	90	0	142	17	23	10	48	1.78
53739361--53739390	15	1.9	16	93	6	53	20	23	10	46	1.80
53750223--53750278	27	2.1	27	96	0	103	37	10	16	35	1.83
53754370--53754401	3	10.7	3	100	0	64	31	0	0	68	0.90
53754912--53754939	13	2.2	13	100	0	56	53	14	0	32	1.41
53755190--53755298	59	1.9	55	81	10	130	38	3	10	47	1.55
53755363--53755399	18	1.9	19	89	10	58	32	8	5	54	1.53
53755685--53755741	26	2.1	27	93	3	98	52	14	0	33	1.41
53755785--53755853	11	6.6	11	73	18	67	40	2	0	56	1.14
53755783--53755851	30	2.2	31	84	7	86	39	2	0	57	1.13
53755775--53755861	10	8.6	10	73	15	72	36	2	1	59	1.17
53759204--53759245	20	2.1	20	86	0	57	47	0	7	45	1.30
53761408--53761436	5	6.0	5	96	4	51	41	0	0	58	0.98
53762453--53762514	22	2.8	22	76	9	63	16	29	20	33	1.94
53762607--53762665	31	1.9	31	96	0	109	52	1	22	23	1.56
53766621--53766675	20	2.8	19	78	15	58	23	1	10	63	1.36
53766758--53766814	26	2.1	27	90	3	89	52	12	0	35	1.39
53766858--53766948	10	9.4	10	74	13	57	36	2	1	60	1.16
53766849--53766949	20	5.3	19	68	17	66	34	1	0	62	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53767304--53768045	391	1.9	386	96	1	1376	29	23	15	31	1.95
53768059--53768158	30	3.2	30	81	15	139	37	18	4	41	1.69
53768642--53768930	22	13.1	22	87	0	371	43	19	10	26	1.83
53768642--53768930	44	6.6	44	90	0	416	43	19	10	26	1.83
53769591--53769654	9	7.2	9	85	3	94	42	23	10	23	1.86
53769591--53769654	26	2.4	27	94	2	112	42	23	10	23	1.86
53769693--53769736	20	2.2	20	84	8	54	25	0	6	68	1.14
53771892--53772034	50	2.8	50	89	1	214	21	29	23	25	1.99
53779273--53779312	20	2.0	20	90	0	62	45	12	10	32	1.75
53779260--53779324	35	1.9	34	90	6	105	44	13	7	33	1.73
53783069--53783111	22	2.0	22	100	0	86	37	13	25	23	1.92
53784824--53784850	2	13.5	2	100	0	54	51	0	0	48	1.00
53788281--53788352	22	3.3	22	94	0	117	30	16	27	25	1.97
53789309--53789349	21	1.9	20	85	14	55	39	0	0	60	0.96
53791964--53792045	40	2.1	39	95	2	146	31	1	31	35	1.66
53792385--53792434	25	2.0	25	88	0	73	60	8	16	16	1.58
53794083--53794137	21	2.7	21	88	5	78	36	18	12	32	1.88
53794548--53794601	20	2.7	19	81	13	56	64	0	0	35	0.94
53794874--53794915	19	2.3	19	87	4	59	35	7	0	57	1.26
53794874--53794915	18	2.3	19	83	4	50	35	7	0	57	1.26
53795208--53795253	19	2.4	20	85	7	60	73	2	2	21	1.04
53796132--53796177	23	2.0	24	91	4	76	19	6	17	56	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53803032--53803081	12	4.1	12	75	14	57	54	10	2	34	1.45
53803205--53803261	28	2.0	28	100	0	114	43	24	17	14	1.86
53811998--53812046	24	2.0	24	96	0	89	34	8	20	36	1.82
53816334--53816362	3	9.7	3	100	0	58	68	0	31	0	0.89
53826628--53826679	15	3.2	15	73	19	50	44	0	1	53	1.11
53826628--53826691	34	1.9	32	87	6	92	46	0	3	50	1.17
53828900--53828935	17	2.2	16	90	5	54	38	0	2	58	1.13
53830085--53830124	20	2.0	20	90	0	62	27	10	12	50	1.72
53830070--53830136	34	1.9	35	87	3	100	32	8	11	46	1.72
53832360--53832413	28	2.0	27	81	3	63	42	3	40	12	1.61
53832671--53832714	7	6.3	7	86	0	52	36	6	2	54	1.40
53833462--53833494	2	16.5	2	93	0	57	45	0	0	54	0.99
53861625--53861660	13	2.8	13	86	0	54	63	16	13	5	1.47
53862722--53862785	31	2.1	31	85	5	85	37	3	1	57	1.24
53868255--53868298	19	2.4	18	88	3	61	52	0	0	47	1.00
53868846--53868873	14	2.0	14	100	0	56	42	14	14	28	1.84
53871711--53871825	60	1.9	59	87	1	167	35	6	16	40	1.75
53873126--53873174	23	2.1	23	88	0	71	44	22	6	26	1.76
53876495--53876529	9	3.9	9	88	0	52	45	0	2	51	1.16
53876495--53876539	18	2.5	18	85	0	54	48	0	4	46	1.22
53882388--53882937	183	3.0	183	92	1	893	34	15	25	24	1.94
53886521--53886552	13	2.5	13	100	0	64	6	9	56	28	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53888070--53888122	21	2.5	21	87	0	79	28	7	33	30	1.85
53895998--53896081	43	2.0	43	92	2	143	36	4	15	42	1.68
53902719--53902766	21	2.3	22	86	13	66	35	8	8	47	1.64
53906681--53906724	14	2.9	15	81	18	56	29	2	0	68	1.02
53909309--53909367	3	19.7	3	80	13	68	33	1	3	61	1.23
53909393--53909425	16	2.1	16	94	0	57	75	6	15	3	1.11
53911888--53911913	4	6.5	4	100	0	52	76	0	0	23	0.78
53921040--53921266	41	5.5	41	94	0	373	25	20	29	24	1.99
53928996--53929222	41	5.5	41	93	0	364	27	20	27	24	1.99
53947903--53947995	28	3.5	27	71	20	72	53	1	0	45	1.07

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199