genome.fa.s25.2.7.7.80.10.50.1000.166.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_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  166  of  196  ( 23409 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)
48627227--48627252	13	2.0	13	100	0	52	46	23	23	7	1.78
48627240--48627638	114	3.5	113	89	1	602	24	24	24	27	2.00
48634856--48634971	58	2.0	58	96	0	214	41	12	15	31	1.84
48643083--48643232	63	2.4	63	84	3	178	24	20	28	28	1.99
48646197--48646248	15	3.6	15	80	12	56	44	0	1	53	1.11
48646135--48646364	120	1.9	120	100	0	460	41	1	6	49	1.40
48646145--48646332	61	3.1	61	70	14	208	42	1	7	48	1.40
48646326--48646367	15	2.7	16	82	14	52	45	0	2	52	1.13
48646317--48646358	15	2.9	15	82	10	52	47	0	0	52	1.00
48646493--48646602	45	2.6	43	79	11	120	32	29	5	32	1.80
48646583--48646650	16	4.2	16	94	0	118	35	36	0	27	1.58
48648114--48648189	23	3.3	23	84	0	107	23	19	27	28	1.98
48649348--48649486	49	2.8	49	91	0	215	25	15	26	32	1.96
48653875--48653908	15	2.3	15	89	0	50	0	2	44	52	1.16
48653874--48653901	5	5.6	5	100	0	56	0	0	39	60	0.97
48664389--48664434	6	7.7	6	97	0	83	45	2	52	0	1.13
48678708--48678762	23	2.4	23	90	0	83	29	9	21	40	1.84
48682090--48682144	27	2.0	27	96	0	101	20	25	34	20	1.96
48687641--48687676	16	2.2	16	100	0	72	25	0	36	38	1.56
48687892--48687933	15	2.7	16	82	14	52	52	2	0	45	1.13
48687901--48687942	15	2.9	15	82	10	52	52	0	0	47	1.00
48688128--48688179	15	3.6	15	80	12	56	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48687895--48688304	120	3.4	120	93	4	697	49	4	3	42	1.40
48688345--48688392	26	1.9	25	84	16	64	52	2	0	45	1.12
48688300--48688509	92	2.3	92	82	7	232	49	3	2	44	1.35
48688335--48688528	92	2.1	92	86	5	268	46	4	3	45	1.41
48691526--48691601	33	2.3	33	97	0	143	35	5	15	43	1.70
48691644--48691725	37	2.2	37	91	0	128	35	8	15	40	1.78
48692344--48692370	13	2.1	13	100	0	54	14	7	14	62	1.51
48703905--48703929	13	1.9	13	100	0	50	40	16	4	40	1.67
48704127--48704185	25	2.3	25	85	5	73	67	3	28	0	1.06
48708812--48708862	24	2.1	24	88	0	75	37	5	11	45	1.65
48714803--48714836	12	2.8	12	86	0	50	35	52	0	11	1.38
48715280--48715322	21	2.0	21	100	0	86	44	37	13	4	1.65
48729863--48729894	3	10.7	3	93	0	55	0	0	37	62	0.95
48731056--48731106	25	2.0	25	85	14	70	35	0	0	64	0.94
48731055--48731116	23	2.5	26	80	17	71	35	0	1	62	1.05
48743282--48743317	3	12.0	3	93	0	63	33	2	0	63	1.08
48745573--48745612	14	2.9	14	84	0	53	32	7	17	42	1.77
48745581--48745647	35	1.9	35	87	3	100	31	10	13	44	1.77
48745596--48745635	20	2.0	20	85	0	53	27	12	12	47	1.77
48746990--48747059	27	2.6	27	80	8	79	51	20	2	25	1.61
48748897--48749061	58	2.9	57	89	6	174	35	4	3	55	1.39
48749818--48749845	14	2.0	14	100	0	56	35	7	7	50	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48751909--48751959	26	2.0	25	85	7	68	17	13	1	66	1.34
48755184--48755208	4	6.2	4	100	0	50	48	0	0	52	1.00
48756331--48756408	20	3.8	19	76	10	66	42	2	2	52	1.28
48763039--48763132	25	3.7	24	72	16	73	73	4	13	8	1.22
48763090--48763142	19	2.7	20	77	11	56	71	0	20	7	1.10
48764730--48765380	86	7.5	86	91	0	980	30	21	23	24	1.99
48765474--48765575	44	2.3	44	81	9	127	31	21	21	25	1.98
48765560--48765682	44	2.8	44	80	3	131	29	15	22	32	1.95
48767943--48767984	18	2.2	19	83	8	50	16	4	14	64	1.45
48771252--48771295	20	2.2	20	100	0	88	45	0	13	40	1.44
48774285--48774336	15	3.6	15	80	12	56	44	0	1	53	1.11
48774223--48774452	120	1.9	120	100	0	460	41	1	6	49	1.40
48774233--48774420	61	3.1	61	70	14	208	42	1	7	48	1.40
48774414--48774455	15	2.7	16	82	14	52	45	0	2	52	1.13
48774405--48774446	15	2.9	15	82	10	52	47	0	0	52	1.00
48774581--48774690	45	2.6	43	79	11	120	32	29	5	32	1.80
48774671--48774722	16	3.2	16	91	0	86	34	36	0	28	1.58
48788495--48788578	23	3.5	22	79	11	78	25	25	20	29	1.99
48794965--48794998	16	2.2	16	94	5	61	5	5	14	73	1.21
48797132--48797211	30	2.7	30	96	0	142	17	3	52	26	1.61
48797278--48797318	21	2.0	21	90	0	64	12	0	56	31	1.36
48805156--48805194	18	2.2	17	86	13	53	33	0	20	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48805420--48805492	23	3.2	23	92	0	128	23	21	24	30	1.99
48812023--48812061	18	2.2	17	86	13	53	33	0	20	46	1.51
48812180--48812208	8	3.6	8	100	0	58	24	13	27	34	1.93
48812295--48812367	23	3.2	23	92	0	128	23	21	24	30	1.99
48817301--48817350	14	3.4	14	80	8	55	50	0	2	48	1.12
48823046--48823142	48	2.0	48	97	0	185	37	24	9	28	1.86
48823294--48823562	46	5.8	46	87	3	398	29	23	8	38	1.85
48825230--48825605	23	16.0	23	73	11	260	41	17	13	27	1.87
48825217--48825605	71	5.5	71	89	1	559	40	17	13	27	1.88
48825230--48825605	141	2.7	142	92	1	621	41	17	13	27	1.87
48826319--48826400	28	3.0	25	80	15	83	30	21	12	35	1.90
48826328--48826400	28	2.6	28	88	0	101	28	24	12	34	1.92
48828085--48828145	32	1.9	32	83	12	81	49	1	4	44	1.33
48828104--48828145	20	2.1	20	86	0	57	47	0	7	45	1.30
48830804--48830837	13	2.9	11	84	16	50	61	2	0	35	1.11
48834145--48834208	23	2.9	22	77	13	67	34	1	3	60	1.22
48836783--48836807	5	5.0	5	100	0	50	0	0	60	40	0.97
48853406--48853483	31	2.5	31	80	2	93	30	17	7	43	1.77
48873433--48874823	210	6.7	210	87	3	1915	29	17	22	30	1.97
48874917--48875002	45	1.9	45	90	0	136	27	13	31	26	1.94
48876226--48876375	39	3.9	38	87	2	192	48	5	17	28	1.69
48876226--48876374	77	1.9	77	86	1	208	48	5	17	28	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48879457--48879500	20	2.2	20	84	8	54	9	11	0	79	0.93
48891963--48892020	28	2.1	28	100	0	116	41	17	3	37	1.66
48894830--48894885	26	2.2	26	96	0	103	35	25	7	32	1.83
48916714--48916758	5	8.8	5	82	4	54	6	42	11	40	1.67
48916714--48916758	10	4.4	10	88	5	63	6	42	11	40	1.67
48916774--48916805	15	2.2	15	94	5	57	0	15	0	84	0.63
48917036--48917062	14	1.9	14	100	0	54	51	18	0	29	1.46
48917517--48917559	20	2.2	20	95	0	77	39	9	11	39	1.74
48927696--48927736	16	2.5	17	80	11	50	17	19	0	63	1.31
48930769--48930820	24	2.1	24	86	10	70	40	3	1	53	1.30
48931676--48931715	17	2.3	18	86	4	55	22	0	7	70	1.12
48932962--48933001	18	2.2	18	86	8	55	37	0	0	62	0.95
48933930--48934021	22	4.2	22	86	5	105	30	27	0	42	1.56
48933971--48934073	52	2.0	51	81	12	122	33	31	0	34	1.65
48934023--48934064	22	1.9	22	90	0	66	33	30	2	33	1.71
48934257--48934312	24	2.3	23	77	19	60	28	0	5	66	1.14
48936442--48936476	18	2.0	18	88	5	54	48	20	0	31	1.50
48936430--48936518	23	3.8	23	81	8	117	46	25	0	28	1.53
48936462--48936776	28	11.5	28	79	16	281	47	22	0	29	1.52
48936499--48936628	33	4.1	33	88	10	207	48	21	0	30	1.50
48936579--48936783	23	8.3	23	79	16	216	47	23	0	29	1.52
48936520--48936765	51	4.6	51	83	12	277	47	22	0	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48939923--48940128	85	2.4	86	95	0	378	33	23	19	22	1.97
48940037--48940317	124	2.3	125	83	7	365	34	24	12	28	1.92
48941885--48941935	18	2.6	20	76	20	54	39	1	1	56	1.22
48953992--48954025	14	2.5	14	95	4	61	50	35	0	14	1.44
48956251--48956371	60	2.0	60	100	0	242	44	6	9	38	1.64
48957337--48957389	26	2.0	26	100	0	106	43	15	3	37	1.64
48960781--48960829	19	2.6	17	87	12	62	63	2	0	34	1.06
48964862--48965023	30	5.4	29	90	5	227	30	7	18	43	1.78
48971029--48971067	19	2.1	19	100	0	78	33	0	5	61	1.18
48973828--48973918	25	3.6	25	81	0	110	30	23	25	20	1.98

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