genome.fa.s23.2.7.7.80.10.50.1000.101.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: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Length:  65706892

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   

This is table  101  of  218  ( 26060 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)
29239944--29240020	31	2.5	31	84	0	100	46	20	19	12	1.83
29244482--29244564	38	2.2	38	95	0	148	46	26	9	16	1.78
29264612--29264662	21	2.4	21	93	0	93	33	17	23	25	1.96
29267066--29267156	39	2.3	39	94	0	155	20	5	29	43	1.74
29271680--29271708	15	2.0	15	93	6	51	41	0	3	55	1.17
29278188--29278353	41	4.0	41	79	1	163	22	28	16	32	1.96
29278582--29278609	14	2.0	14	100	0	56	21	0	28	50	1.49
29290879--29291163	50	5.7	50	91	0	435	24	22	30	21	1.99
29290879--29291212	50	6.7	49	89	1	258	25	22	29	22	1.99
29296993--29297057	20	3.5	19	77	16	64	29	6	3	61	1.35
29298261--29298285	13	1.9	13	100	0	50	36	0	16	48	1.46
29300966--29301131	32	5.2	32	74	0	152	33	23	24	18	1.96
29300961--29301134	64	2.7	64	90	0	267	33	22	24	18	1.97
29301212--29301441	27	8.6	27	87	3	304	26	24	17	30	1.97
29301342--29301591	27	9.4	27	78	6	162	25	21	15	38	1.92
29304871--29304904	16	2.1	16	100	0	68	38	0	11	50	1.39
29308143--29308201	24	2.5	24	94	0	100	42	0	27	30	1.56
29308242--29308354	37	3.1	37	93	1	183	33	5	12	48	1.63
29308355--29308489	9	14.3	9	85	9	153	22	8	32	36	1.84
29308358--29308494	20	7.1	20	83	11	137	21	8	32	37	1.83
29308358--29308489	29	4.6	29	86	5	164	21	8	33	36	1.84
29311996--29312141	73	2.0	72	82	6	179	43	6	4	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29312782--29312822	17	2.4	17	100	0	82	56	0	4	39	1.21
29313217--29313254	20	1.9	20	89	10	60	28	5	13	52	1.61
29317545--29317611	34	1.9	35	90	3	109	32	8	13	44	1.75
29332895--29333017	42	2.9	43	78	7	135	25	17	26	30	1.97
29335001--29335071	27	2.6	26	76	12	72	49	2	4	43	1.36
29353410--29353480	25	2.8	27	81	10	96	23	21	21	33	1.97
29355905--29355943	21	1.9	20	84	5	51	56	10	7	25	1.59
29356977--29357246	41	6.6	41	80	8	309	35	16	27	21	1.94
29356977--29357249	121	2.2	123	84	7	367	34	16	27	20	1.94
29363132--29363193	29	2.2	28	88	2	88	22	30	24	22	1.99
29367537--29367601	25	2.6	24	71	9	58	18	7	4	69	1.31
29367573--29367617	19	2.5	19	85	7	58	20	2	8	68	1.27
29379417--29379760	115	3.0	115	93	2	593	25	8	28	37	1.85
29387133--29387171	20	2.0	20	89	0	60	0	43	5	51	1.24
29387154--29387203	3	16.7	3	95	0	91	0	36	0	64	0.94
29387271--29387317	21	2.1	21	88	7	67	38	17	34	10	1.84
29388432--29388481	26	1.9	26	100	0	100	44	14	6	36	1.69
29388584--29388608	6	4.2	6	100	0	50	32	0	16	52	1.44
29390815--29390878	16	4.4	14	73	24	53	32	0	0	67	0.91
29390926--29390979	26	2.1	26	86	3	74	31	0	3	64	1.11
29394042--29394087	3	15.3	3	100	0	92	32	0	0	67	0.91
29394522--29394809	144	2.0	145	82	6	352	39	4	11	44	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29394928--29394959	12	2.7	12	95	0	55	56	0	43	0	0.99
29395732--29395797	27	2.5	26	87	2	69	34	9	13	42	1.76
29395741--29395797	27	2.1	27	93	0	96	36	10	10	42	1.74
29397743--29397796	23	2.3	24	81	12	67	1	70	1	25	1.07
29398045--29398088	11	3.9	11	90	3	70	22	31	0	45	1.53
29398045--29398088	22	2.0	23	95	4	81	22	31	0	45	1.53
29398712--29398757	24	2.0	23	91	4	74	8	6	13	71	1.29
29399809--29399858	9	5.6	9	87	0	73	46	20	8	26	1.78
29399809--29399866	9	6.4	9	87	0	53	43	20	8	27	1.81
29399809--29399866	18	3.2	19	83	9	77	43	20	8	27	1.81
29399874--29399936	17	3.5	17	69	12	54	49	12	3	34	1.57
29399865--29399939	37	2.0	37	94	0	132	45	14	4	36	1.64
29400068--29400184	39	3.0	38	95	3	207	18	2	28	50	1.60
29400165--29400189	13	1.9	13	100	0	50	12	0	48	40	1.40
29409218--29409254	18	2.1	18	89	0	56	24	24	8	43	1.81
29409731--29409779	18	2.7	18	83	0	62	40	20	8	30	1.81
29409787--29409849	17	3.5	17	69	12	54	49	12	3	34	1.57
29409778--29409852	37	2.0	37	94	0	132	45	14	4	36	1.64
29410045--29410080	13	2.8	13	95	4	65	11	0	47	41	1.39
29413540--29413933	126	3.2	126	82	4	469	30	17	13	38	1.88
29414028--29414107	34	2.4	34	81	10	103	42	20	1	36	1.60
29414028--29414108	33	2.4	32	84	11	101	41	19	1	37	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29414080--29414160	28	2.9	29	83	8	98	34	12	4	48	1.62
29422023--29422051	2	14.5	2	100	0	58	51	0	48	0	1.00
29422731--29422824	48	2.0	48	100	0	188	38	13	20	27	1.90
29424347--29424984	318	2.0	319	95	0	1134	34	15	13	36	1.87
29432444--29432497	17	3.2	17	89	0	81	35	7	20	37	1.81
29432482--29432528	23	2.0	23	87	4	67	34	6	17	42	1.74
29433922--29433957	9	4.0	9	100	0	72	33	11	22	33	1.89
29436708--29436782	30	2.5	30	80	2	89	26	24	10	38	1.88
29436768--29436846	30	2.7	30	76	2	97	21	26	11	40	1.87
29436825--29436899	30	2.5	30	82	4	89	26	30	8	34	1.85
29436885--29436958	29	2.5	30	84	8	98	17	31	10	40	1.84
29436706--29436986	119	2.4	119	85	4	363	23	27	11	37	1.90
29439427--29439496	27	2.7	27	82	4	72	28	22	24	24	1.99
29444039--29444095	18	3.2	18	89	0	78	15	36	29	17	1.91
29446699--29446731	14	2.5	13	90	9	57	36	0	30	33	1.58
29447147--29447185	16	2.4	16	100	0	78	43	5	20	30	1.73
29450259--29450305	24	2.0	23	88	12	69	31	4	17	46	1.67
29450259--29450305	23	2.0	24	88	12	71	31	4	17	46	1.67
29451186--29451251	34	1.9	34	90	0	105	62	6	1	30	1.29
29455481--29455528	25	1.9	25	82	0	60	47	2	6	43	1.40
29456481--29456983	248	2.0	248	98	0	970	32	13	16	37	1.88
29459422--29459466	18	2.6	18	86	10	58	42	6	15	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29466659--29466891	27	8.6	27	88	0	322	33	24	17	24	1.96
29466659--29466891	81	2.9	81	87	0	367	33	24	17	24	1.96
29470387--29470427	11	3.8	11	83	3	57	58	0	0	41	0.98
29470431--29470455	12	2.1	12	100	0	50	60	8	0	32	1.26
29470452--29470513	16	3.5	17	81	18	74	40	0	3	56	1.15
29470452--29470504	15	3.3	16	84	5	54	39	0	3	56	1.17
29470452--29470513	20	3.5	18	77	22	69	40	0	3	56	1.15
29483301--29483365	31	2.1	31	91	0	103	43	9	12	35	1.74
29485404--29485481	40	2.0	40	86	0	111	34	17	28	19	1.95
29487676--29487740	28	2.2	30	83	8	80	20	21	15	43	1.88
29488140--29488334	98	2.0	98	95	0	354	37	24	10	28	1.88
29488610--29488642	15	2.2	15	94	0	57	63	12	0	24	1.28
29489071--29489108	19	2.0	19	100	0	76	42	5	10	42	1.62
29489074--29489114	19	2.3	18	87	8	57	48	4	14	31	1.65
29490510--29490590	33	2.5	33	84	10	103	14	22	19	43	1.88
29492595--29492787	50	3.7	50	79	4	161	23	27	21	27	1.99
29496415--29496441	3	9.0	3	100	0	54	66	0	0	33	0.92
29498663--29498725	31	2.1	28	83	13	74	34	11	4	49	1.59
29502739--29502814	37	2.1	36	83	11	93	40	2	2	53	1.28
29504143--29504346	90	2.3	90	84	3	250	32	17	16	33	1.92
29507611--29507658	22	2.1	23	85	11	64	62	14	6	16	1.51
29508012--29508074	28	2.2	27	83	10	81	42	19	20	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29512094--29512213	24	5.0	24	87	0	159	43	26	14	15	1.85
29515486--29515536	26	1.9	27	88	4	77	43	3	15	37	1.66
29521368--29521600	27	8.6	27	88	0	322	33	24	18	24	1.97
29521368--29521600	81	2.9	81	87	0	367	33	24	18	24	1.97
29526349--29526411	31	2.1	28	83	13	74	34	11	4	49	1.59
29532037--29532082	23	2.0	23	95	0	83	34	10	13	41	1.79
29532171--29532233	28	2.2	29	86	10	87	46	17	20	15	1.85
29536289--29536377	24	3.7	24	82	8	101	42	25	16	14	1.87
29546818--29546937	24	5.0	24	88	0	150	44	25	14	15	1.85
29568378--29568902	260	2.0	260	94	1	910	33	18	9	38	1.82

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218