genome.fa.s26.2.7.7.80.10.50.1000.127.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   219   220   221   

This is table  127  of  221  ( 26413 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)
39063538--39063593	21	2.8	21	80	20	66	46	10	0	42	1.38
39089404--39089696	50	5.8	50	91	0	451	25	23	31	19	1.98
39092739--39092763	10	2.5	10	100	0	50	24	8	0	68	1.16
39099196--39099230	15	2.3	15	90	0	52	71	8	5	14	1.29
39099185--39099214	9	3.3	9	100	0	60	80	10	0	10	0.92
39102615--39102789	71	2.5	71	86	1	226	28	21	20	29	1.98
39110879--39110923	16	2.8	17	78	21	53	37	4	0	57	1.19
39113202--39113245	22	1.9	24	86	9	65	45	2	9	43	1.48
39113346--39113387	20	2.1	20	86	8	59	45	7	7	40	1.59
39113617--39113680	13	4.9	13	82	0	83	28	6	28	37	1.81
39129281--39129321	19	2.2	19	91	4	66	48	0	2	48	1.14
39136831--39136867	15	2.5	15	84	16	51	37	8	2	51	1.46
39141556--39141679	50	2.5	50	80	2	142	19	29	25	25	1.99
39147507--39147531	13	1.9	13	100	0	50	40	28	0	32	1.57
39149347--39149399	21	2.5	21	93	0	88	33	9	13	43	1.76
39159276--39159339	13	4.9	13	81	7	85	29	7	26	35	1.85
39169859--39169899	15	2.4	18	80	11	52	65	7	7	19	1.41
39172424--39172453	14	2.1	14	93	0	51	40	0	43	16	1.48
39175256--39175322	29	2.3	28	75	14	66	74	1	1	22	0.98
39175703--39175811	54	2.0	54	96	0	200	32	18	12	36	1.89
39177603--39177649	12	4.0	12	84	13	62	25	0	4	70	1.05
39177605--39177648	23	1.9	23	90	9	72	25	0	2	72	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39178236--39178366	40	3.3	39	73	11	113	37	22	23	16	1.94
39178412--39178731	41	7.8	41	77	5	263	15	25	23	35	1.95
39178412--39178731	82	3.9	82	83	2	358	15	25	23	35	1.95
39179203--39179240	15	2.5	15	86	0	58	21	0	42	36	1.53
39179176--39179243	15	4.9	14	74	13	52	23	0	35	41	1.55
39182029--39182206	27	6.6	26	81	6	178	26	15	28	29	1.96
39182030--39182185	82	1.9	81	85	3	215	26	15	28	29	1.96
39182029--39182206	82	2.2	81	82	3	214	26	15	28	29	1.96
39182111--39182217	27	3.9	27	83	1	79	26	15	28	29	1.96
39198197--39198248	27	1.9	27	84	0	68	42	0	9	48	1.36
39199129--39199155	11	2.5	11	100	0	54	25	18	0	55	1.43
39201076--39201128	21	2.5	21	87	9	81	41	1	0	56	1.10
39201079--39201137	21	2.9	19	83	16	66	44	1	1	52	1.21
39201228--39201252	13	1.9	13	100	0	50	40	24	0	36	1.55
39201241--39201412	39	4.5	38	67	16	104	46	19	1	33	1.57
39201305--39201676	9	43.8	9	70	16	233	45	20	2	31	1.66
39201305--39201672	25	14.5	25	71	16	183	45	20	2	31	1.66
39201405--39201617	59	3.6	59	92	3	340	45	18	3	32	1.66
39201374--39201649	118	2.3	117	80	10	353	44	19	3	32	1.67
39203877--39203923	21	2.2	22	92	3	78	21	38	19	21	1.94
39214624--39214673	18	2.7	19	84	9	68	34	16	36	14	1.88
39215524--39215590	29	2.2	31	86	7	93	41	13	16	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39215973--39216167	27	7.2	27	81	2	203	20	15	22	42	1.89
39215984--39216167	54	3.4	52	85	5	233	19	15	21	44	1.87
39215971--39216177	81	2.6	81	86	0	270	19	14	22	42	1.88
39224913--39224977	20	3.3	19	80	8	67	40	6	13	40	1.70
39225174--39225221	19	2.6	19	83	3	62	35	2	12	50	1.52
39229808--39229847	19	2.2	18	95	4	71	40	2	15	42	1.60
39236606--39236670	33	2.0	33	100	0	130	35	15	6	43	1.72
39247615--39247644	14	2.1	14	93	0	51	50	10	0	40	1.36
39248094--39248216	55	2.2	56	88	2	176	26	12	28	33	1.92
39248094--39248216	28	4.4	28	90	2	176	26	12	28	33	1.92
39248119--39248229	28	4.0	27	90	3	116	28	11	26	33	1.91
39255937--39255970	8	4.2	8	96	0	59	50	8	0	41	1.34
39255937--39255974	16	2.5	15	87	8	51	50	10	0	39	1.37
39256424--39256547	28	4.4	28	90	2	178	26	12	28	33	1.92
39264659--39264722	30	2.1	31	91	2	103	26	25	6	42	1.78
39269773--39269901	50	2.6	51	78	3	136	27	20	27	24	1.99
39281132--39281651	27	19.3	27	87	0	628	44	22	15	17	1.86
39290488--39290557	17	4.2	16	75	8	52	20	2	22	54	1.58
39295192--39295236	23	2.0	23	90	0	72	33	8	17	40	1.81
39306314--39306438	61	2.1	59	80	5	135	49	6	2	41	1.41
39306955--39307022	27	2.6	25	83	9	73	19	35	2	42	1.66
39307023--39307094	36	1.9	36	86	8	99	34	11	2	51	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39307374--39307411	19	2.0	19	89	0	58	28	5	31	34	1.80
39308663--39308693	16	1.9	16	93	0	53	48	12	9	29	1.73
39309683--39309731	24	2.0	24	100	0	98	16	24	8	51	1.71
39309757--39309824	25	2.7	25	84	11	77	61	11	11	14	1.56
39316229--39316274	21	2.2	23	81	14	55	47	10	8	32	1.69
39319514--39319554	15	2.7	16	85	11	59	41	4	4	48	1.46
39321036--39321099	26	2.5	26	89	0	101	26	28	20	25	1.99
39323006--39323076	35	2.0	35	91	0	115	21	16	12	49	1.79
39324223--39324347	42	3.0	42	98	0	241	44	4	26	24	1.74
39325889--39326067	66	2.7	66	80	1	198	25	26	26	21	1.99
39327340--39327411	36	2.0	35	84	7	92	26	23	13	36	1.93
39329918--39329958	3	14.3	3	87	10	50	24	0	0	75	0.80
39329918--39329958	14	2.9	14	81	3	55	24	0	0	75	0.80
39332406--39332520	40	2.8	40	78	2	131	37	20	20	20	1.95
39332557--39332676	41	2.9	41	89	1	168	26	24	21	27	1.99
39333160--39333211	14	3.7	14	78	0	50	25	0	38	36	1.56
39333172--39333212	21	2.0	21	85	0	55	26	0	41	31	1.56
39334331--39334648	148	2.1	150	89	4	475	40	14	13	31	1.85
39339068--39339336	43	6.3	42	86	4	313	23	17	31	27	1.97
39339066--39339336	86	3.2	86	84	2	357	22	17	31	28	1.97
39339068--39339336	129	2.1	129	85	0	349	23	17	31	27	1.97
39341034--39341442	202	2.0	202	93	1	705	42	3	15	38	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39350305--39350335	2	15.5	2	93	0	53	0	51	0	48	1.00
39352835--39352874	9	4.4	9	90	0	62	27	10	22	40	1.86
39352835--39352874	18	2.2	18	95	0	71	27	10	22	40	1.86
39367620--39367646	6	4.5	6	100	0	54	14	51	0	33	1.43
39371363--39371387	12	2.1	12	100	0	50	76	8	16	0	1.02
39374941--39374989	14	3.0	17	80	14	50	46	0	6	46	1.27
39377504--39377554	19	2.7	19	80	19	63	33	0	11	54	1.37
39379569--39379614	25	1.9	23	82	8	56	52	2	4	41	1.33
39384513--39384569	26	2.2	25	75	9	62	17	24	5	52	1.65
39391002--39391108	45	2.4	45	80	9	137	42	18	16	21	1.89
39391308--39391394	40	2.2	40	85	0	111	41	19	8	31	1.80
39392176--39392202	5	5.4	5	100	0	54	59	0	0	40	0.98
39393884--39393954	34	2.1	34	100	0	142	42	23	2	30	1.69
39398242--39398341	45	2.2	45	83	0	128	42	17	18	23	1.89
39399415--39399510	5	19.2	5	100	0	192	59	0	0	40	0.97
39402284--39402338	20	2.7	20	80	2	56	25	29	25	20	1.99
39402293--39402338	21	2.2	20	84	3	56	26	23	26	23	2.00
39403210--39403239	15	1.9	16	93	6	53	40	33	6	20	1.78
39415948--39416161	41	5.2	41	84	2	288	19	27	17	35	1.94
39415948--39416142	83	2.4	82	86	2	284	18	27	17	36	1.93
39416883--39416917	15	2.3	15	100	0	70	28	31	25	14	1.95
39419385--39419710	165	2.0	165	96	0	598	39	17	8	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39422462--39422975	31	16.7	31	87	2	664	31	8	15	43	1.77
39422462--39422975	61	8.4	62	85	3	664	31	8	15	43	1.77
39422462--39422975	92	5.6	91	87	3	631	31	8	15	43	1.77
39424691--39424776	30	2.8	31	81	6	88	44	3	18	33	1.67
39432015--39432044	16	1.9	15	93	6	51	86	0	0	13	0.57
39433114--39433753	169	3.8	169	90	0	933	27	27	15	29	1.96
39433775--39433861	44	2.0	44	93	0	147	29	24	17	28	1.97
39436786--39436870	9	9.4	9	88	0	116	45	22	7	24	1.77
39436786--39436870	27	3.1	27	89	0	134	45	22	7	24	1.77
39436977--39437020	18	2.4	18	88	0	61	13	2	43	40	1.57

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   219   220   221