genome.fa.s23.2.7.7.80.10.50.1000.15.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  15  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)
5362812--5362885	38	1.9	38	97	0	139	32	9	12	45	1.73
5364245--5364489	118	2.1	118	90	3	379	28	17	20	32	1.96
5368016--5368106	45	2.0	44	82	2	110	29	5	28	36	1.80
5368271--5368305	18	2.0	17	88	5	52	54	0	0	45	0.99
5368165--5368473	157	2.0	156	96	0	573	44	3	4	47	1.39
5368408--5368449	15	2.7	16	82	14	52	52	2	0	45	1.13
5368417--5368458	15	2.9	15	82	10	52	52	0	0	47	1.00
5368936--5368960	13	1.9	13	100	0	50	64	20	8	8	1.46
5373970--5374061	20	4.8	19	76	19	77	67	1	4	27	1.16
5373969--5374087	9	12.9	9	72	19	86	67	1	4	26	1.19
5374610--5374660	23	2.3	23	86	6	70	41	1	0	56	1.10
5407804--5407970	87	1.9	86	83	8	214	45	2	12	38	1.57
5407965--5408009	20	2.2	20	88	0	63	37	0	11	51	1.38
5407997--5408051	22	2.7	20	80	5	65	43	3	10	41	1.57
5407988--5408059	22	3.7	20	73	12	60	45	2	9	41	1.51
5407999--5408068	20	3.4	20	75	11	61	41	2	11	44	1.55
5408081--5408129	20	2.5	20	86	0	62	40	0	14	44	1.45
5408093--5408187	20	4.8	20	73	12	79	36	5	14	43	1.68
5430691--5430856	19	8.7	19	65	23	75	34	0	13	51	1.45
5430774--5430856	27	3.1	27	92	1	141	36	1	13	49	1.50
5431042--5431085	16	2.8	16	82	0	61	56	2	2	38	1.24
5431311--5431442	19	6.6	19	72	24	112	53	13	0	33	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5431311--5431368	21	2.9	21	94	5	102	55	15	0	29	1.41
5431438--5431504	27	2.5	27	95	0	116	13	32	22	31	1.92
5436311--5436387	29	2.6	30	81	10	86	48	12	1	37	1.50
5439175--5439483	37	7.9	37	67	21	132	51	3	1	43	1.28
5439138--5439496	120	3.0	120	95	2	643	52	3	1	42	1.27
5439239--5439421	26	7.5	25	65	20	84	55	2	1	41	1.19
5439278--5439313	18	2.0	18	100	0	72	61	0	0	38	0.96
5439368--5439408	13	3.2	12	80	12	55	58	0	0	41	0.98
5443146--5443178	3	11.0	3	100	0	66	66	0	0	33	0.92
5443477--5443518	11	3.7	12	78	12	52	30	30	0	38	1.58
5443506--5443562	29	2.0	28	82	3	69	31	21	0	47	1.51
5444506--5444543	20	1.9	20	89	10	60	36	2	5	55	1.37
5445834--5446012	25	7.6	25	68	18	134	40	0	12	46	1.42
5445824--5446012	70	2.7	70	95	1	337	40	0	12	47	1.42
5448866--5449211	124	2.8	124	89	1	552	33	22	16	27	1.95
5452579--5452620	18	2.3	18	87	0	57	14	9	64	11	1.50
5452782--5452821	21	1.9	21	89	0	62	15	17	55	12	1.70
5457162--5457208	23	2.0	23	83	0	58	19	2	27	51	1.58
5464976--5465039	22	2.9	23	81	4	60	65	0	3	31	1.08
5465000--5465046	24	2.0	24	83	8	60	65	2	0	31	1.04
5464994--5465049	16	3.4	16	74	18	53	67	1	0	30	1.01
5472084--5472151	36	1.9	36	93	3	120	32	1	0	66	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5472112--5472163	26	2.0	26	88	3	79	30	0	1	67	1.02
5473448--5473520	22	3.2	22	75	14	69	39	10	1	47	1.47
5473536--5473618	43	1.9	43	87	4	123	37	9	1	51	1.42
5478542--5478566	10	2.5	10	100	0	50	28	8	0	64	1.22
5486001--5486057	28	2.0	28	83	6	71	43	7	0	49	1.29
5497276--5497332	20	2.8	21	78	2	62	61	5	8	24	1.46
5497614--5497654	21	2.0	21	95	4	75	58	0	17	24	1.38
5497592--5497688	20	4.7	21	73	12	58	63	5	14	16	1.47
5497592--5497689	21	4.7	22	70	10	55	64	5	14	16	1.46
5497704--5497752	22	2.2	22	88	0	80	55	20	16	8	1.66
5498098--5498274	39	4.5	41	73	12	118	55	8	18	18	1.67
5498110--5498597	59	8.2	57	71	14	262	56	6	16	19	1.62
5498209--5498303	39	2.4	39	83	11	106	61	4	15	18	1.50
5498398--5498430	16	2.1	16	94	0	57	51	0	21	27	1.48
5498429--5498539	41	2.7	40	80	4	114	59	5	13	21	1.54
5498117--5498597	20	24.3	20	68	14	180	56	6	16	19	1.61
5498021--5498597	20	29.2	20	66	16	163	55	7	17	19	1.64
5498940--5498993	21	2.6	21	87	0	81	25	5	37	31	1.79
5499403--5499447	17	2.6	17	78	0	63	51	0	0	48	1.00
5502123--5502190	20	3.4	19	69	18	57	55	11	5	26	1.58
5507651--5507707	15	3.8	15	76	13	55	36	1	0	61	1.07
5509513--5509591	37	2.1	37	86	4	106	26	30	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5509710--5510102	47	8.2	47	92	2	615	29	28	8	33	1.87
5509710--5510102	96	4.1	94	93	2	615	29	28	8	33	1.87
5513440--5513545	21	5.0	21	68	4	61	18	21	17	41	1.90
5513444--5513562	42	2.8	40	80	8	139	18	23	17	40	1.91
5517741--5517768	14	2.0	14	100	0	56	50	7	21	21	1.72
5519170--5519203	17	2.0	17	100	0	68	52	5	0	41	1.25
5519323--5519349	13	2.1	13	100	0	54	29	14	7	48	1.71
5519593--5519634	11	3.5	12	80	9	50	45	0	2	52	1.13
5519706--5519760	22	2.5	22	77	14	58	29	3	3	63	1.28
5520016--5520109	46	2.0	46	100	0	188	25	12	8	53	1.67
5523401--5523503	51	2.0	51	98	0	197	27	15	21	35	1.93
5531120--5531200	19	4.2	19	73	13	76	18	24	27	29	1.98
5533230--5533340	31	3.6	31	79	2	107	25	16	27	30	1.96
5533283--5533348	31	2.1	31	91	0	105	25	16	28	28	1.97
5541736--5541809	36	2.1	36	94	0	130	45	14	4	35	1.64
5544528--5544592	33	2.0	33	100	0	130	30	12	18	38	1.88
5553616--5553662	2	22.5	2	79	16	51	44	8	0	46	1.33
5557587--5557633	21	2.2	22	92	3	78	21	19	38	21	1.94
5571867--5571900	16	2.1	17	88	5	52	61	0	0	38	0.96
5579558--5579591	16	2.1	16	94	0	59	11	17	0	70	1.16
5583180--5583214	16	2.2	16	90	5	54	28	2	0	68	1.04
5585678--5585707	13	2.3	13	94	0	51	50	6	13	30	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5587195--5587380	59	3.1	58	70	14	189	40	1	6	51	1.37
5587269--5587303	18	2.0	18	94	5	63	42	0	0	57	0.99
5587276--5587321	18	2.8	17	83	9	51	45	0	0	54	0.99
5587288--5587344	26	2.2	25	81	3	69	40	0	3	56	1.17
5587192--5587438	120	2.0	121	95	0	442	40	1	5	52	1.32
5587391--5587426	18	2.0	18	100	0	72	33	0	0	66	0.92
5587395--5587434	18	2.2	18	86	0	53	42	0	0	57	0.98
5587584--5587678	45	2.1	44	86	1	127	34	27	6	31	1.82
5587657--5587726	16	4.4	16	90	0	113	31	35	1	31	1.67
5590188--5590212	3	8.3	3	100	0	50	0	32	0	68	0.90
5590458--5590554	46	2.1	46	100	0	194	39	8	24	27	1.84
5594855--5594892	18	2.1	18	100	0	76	52	36	5	5	1.47
5598104--5598171	32	2.1	31	82	15	77	38	1	1	58	1.16
5599945--5600030	45	1.9	45	87	0	127	43	11	20	24	1.85
5605345--5605428	23	3.8	23	82	4	102	39	22	20	17	1.92
5605341--5605428	46	2.0	43	84	6	113	39	21	19	19	1.92
5614451--5614508	29	2.0	29	96	0	107	24	0	22	53	1.46
5614781--5614845	29	2.2	29	88	0	94	21	33	27	16	1.95
5616133--5616175	21	2.0	21	86	0	59	41	27	25	4	1.75
5618445--5618528	3	28.0	3	86	0	69	33	10	1	54	1.43
5633305--5633627	46	7.0	46	91	0	513	35	8	26	29	1.87
5634035--5634093	30	2.0	30	100	0	118	61	15	3	20	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5641115--5641213	46	2.2	46	88	0	153	33	22	18	26	1.96
5646050--5646095	21	2.1	23	88	8	69	21	2	19	56	1.52
5646149--5646457	7	43.7	7	69	10	101	21	2	31	44	1.65
5646214--5646333	22	5.5	22	74	11	104	20	5	35	38	1.76
5646324--5646367	20	2.1	21	87	4	63	18	0	31	50	1.47
5646405--5646459	20	2.6	22	83	11	71	20	0	32	47	1.50
5646724--5647054	103	3.1	102	77	12	383	26	13	19	39	1.90
5646827--5647080	116	2.2	115	89	0	373	26	14	20	38	1.90
5646977--5647115	74	1.9	75	90	1	226	24	12	18	44	1.84
5647234--5647356	23	5.4	22	70	16	72	20	35	1	42	1.62

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