genome.fa.s4.2.7.7.80.10.50.1000.179.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_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   

This is table  179  of  253  ( 30316 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)
58371927--58372049	43	2.9	43	82	0	129	23	13	17	45	1.84
58371945--58372120	86	2.0	87	80	3	194	22	13	18	45	1.84
58376751--58376808	30	1.9	30	82	0	71	31	10	27	31	1.90
58377152--58377360	46	4.5	46	77	14	191	27	17	29	25	1.98
58379445--58379672	40	5.7	40	92	3	379	25	27	22	25	2.00
58382335--58383195	436	2.0	436	93	0	1479	29	23	26	21	1.99
58384900--58384934	17	2.1	17	100	0	70	34	37	28	0	1.58
58398742--58398800	30	2.0	30	82	0	73	32	11	27	28	1.92
58399139--58399355	46	4.7	46	79	9	187	27	20	29	22	1.98
58404410--58404464	26	2.0	28	82	10	69	54	1	3	40	1.28
58406035--58406083	25	2.0	24	88	4	71	55	0	4	40	1.19
58430898--58431758	436	2.0	436	93	0	1479	29	23	26	21	1.99
58433465--58433499	17	2.1	17	100	0	70	34	37	28	0	1.58
58447354--58447412	30	2.0	30	82	0	73	32	11	27	28	1.92
58447756--58447972	46	4.7	46	79	9	187	27	20	29	22	1.98
58453050--58453104	26	2.0	28	82	10	69	54	1	3	40	1.28
58454684--58454732	25	2.0	24	88	4	71	55	0	4	40	1.19
58456706--58456835	58	2.3	58	93	2	228	45	4	10	40	1.58
58467336--58467458	43	2.9	43	86	0	165	21	17	17	43	1.88
58467331--58467529	86	2.3	86	78	0	191	21	17	20	41	1.90
58472154--58472211	30	1.9	30	85	0	80	32	10	27	29	1.90
58472548--58472757	46	4.6	44	72	15	149	27	16	30	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58474411--58475264	435	2.0	435	93	0	1467	29	23	26	21	1.99
58476973--58477007	17	2.1	17	100	0	70	34	37	28	0	1.58
58489831--58489889	30	2.0	30	82	0	73	32	11	27	28	1.92
58490228--58490447	46	4.8	45	75	9	158	27	19	28	24	1.98
58495484--58495538	26	2.0	28	82	10	69	54	1	3	40	1.28
58497118--58497166	25	2.0	24	88	4	71	55	0	4	40	1.19
58499139--58499268	58	2.3	58	89	5	203	45	4	9	40	1.57
58520425--58520464	21	2.0	20	85	5	53	25	25	35	15	1.94
58521635--58521905	48	5.7	47	76	7	203	25	30	18	25	1.97
58521780--58521953	46	3.8	44	84	7	163	22	30	20	26	1.98
58522660--58522686	13	2.1	13	100	0	54	62	14	7	14	1.51
58535387--58535489	50	2.1	50	90	0	161	31	2	4	61	1.32
58536470--58536509	20	2.0	20	95	0	71	30	27	0	42	1.56
58540331--58540365	17	2.1	17	100	0	70	34	17	11	37	1.85
58560303--58560491	29	6.5	28	80	3	144	35	11	27	25	1.90
58560277--58560491	58	3.7	58	79	4	218	35	10	26	26	1.89
58578497--58578604	26	4.2	26	90	0	171	36	24	7	32	1.83
58580913--58581010	28	3.5	28	88	5	128	31	27	13	27	1.94
58584899--58584972	36	2.1	36	94	0	130	43	12	12	32	1.79
58590329--58590581	103	2.4	104	90	3	402	30	28	20	20	1.98
58590921--58590985	30	2.2	29	81	8	76	30	27	6	35	1.81
58590928--58590985	30	1.9	30	85	0	80	31	24	6	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58597707--58597971	103	2.6	104	90	3	417	29	29	20	19	1.97
58598299--58598363	30	2.2	29	81	8	76	30	27	6	35	1.81
58598306--58598363	30	1.9	30	85	0	80	31	24	6	37	1.82
58601481--58601519	18	2.2	18	86	4	53	12	30	43	12	1.81
58615924--58615961	15	2.5	15	95	0	67	28	7	23	39	1.83
58616307--58616347	19	2.2	19	86	0	55	53	0	2	43	1.13
58619061--58619087	8	3.4	8	100	0	54	66	0	11	22	1.22
58619467--58619631	42	3.9	42	79	3	163	30	12	23	33	1.91
58628455--58629423	483	2.0	484	97	0	1823	24	13	22	39	1.90
58629852--58629908	29	2.0	29	96	0	105	26	21	36	15	1.93
58629856--58629918	29	2.2	29	88	0	90	25	22	36	15	1.94
58630360--58630404	24	2.0	24	86	8	67	37	0	8	53	1.32
58631140--58631282	75	1.9	72	80	9	164	40	17	6	34	1.77
58631599--58631642	20	2.2	20	80	11	56	38	0	0	61	0.96
58631600--58631639	19	2.1	19	86	9	55	37	0	0	62	0.95
58632011--58632040	15	2.0	15	93	0	51	66	3	0	30	1.07
58633725--58633774	25	2.0	24	85	11	66	16	2	12	70	1.26
58634130--58634512	200	1.9	206	81	9	473	37	7	5	49	1.55
58634396--58634620	109	2.1	111	81	11	268	39	8	8	44	1.63
58635032--58635063	11	2.8	11	95	4	55	59	0	0	40	0.97
58656023--58656167	40	3.6	40	85	4	193	25	24	26	23	2.00
58664044--58664188	40	3.6	40	85	4	193	25	24	26	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58670077--58670162	29	3.2	27	72	16	72	63	2	10	23	1.37
58689358--58689487	43	3.0	43	82	5	129	23	16	31	28	1.96
58689391--58689487	44	2.2	43	87	1	131	25	15	31	26	1.96
58690484--58690524	22	1.9	22	90	5	66	17	29	41	12	1.85
58691679--58691896	46	4.7	46	78	14	191	25	30	17	26	1.98
58691679--58691950	94	2.9	94	77	13	292	25	30	18	26	1.98
58698154--58698188	17	2.1	17	94	0	61	40	28	0	31	1.57
58708511--58708747	43	5.6	43	78	7	236	27	17	22	32	1.96
58708511--58708747	86	2.8	85	88	3	338	27	17	22	32	1.96
58715229--58715368	43	3.3	43	87	4	176	26	15	25	32	1.95
58722865--58722919	28	2.0	28	100	0	110	29	30	10	29	1.91
58727792--58727846	29	2.0	28	86	10	78	20	7	7	65	1.41
58728670--58728706	13	2.8	13	87	0	56	70	0	2	27	1.01
58728670--58728706	7	5.6	7	81	12	51	70	0	2	27	1.01
58734227--58734251	9	2.8	9	100	0	50	8	48	0	44	1.32
58734996--58735031	7	5.0	7	89	3	54	69	2	0	27	1.02
58735488--58735531	22	2.0	22	86	0	61	52	0	0	47	1.00
58735551--58735592	13	2.9	14	80	13	50	52	0	0	47	1.00
58735555--58735591	15	2.3	17	86	13	60	56	0	0	43	0.99
58735624--58735680	15	3.5	15	71	17	51	47	1	3	47	1.29
58735976--58736067	32	2.8	32	78	1	103	53	18	4	23	1.62
58738968--58739001	2	17.0	2	100	0	68	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58739675--58739721	14	3.2	15	79	11	53	63	0	0	36	0.94
58741469--58741598	42	3.1	42	83	2	154	17	34	25	22	1.96
58743500--58743541	18	2.4	17	84	15	50	33	2	2	61	1.21
58743507--58743550	23	1.9	23	90	9	72	34	2	0	63	1.07
58746833--58746882	25	2.0	25	100	0	100	32	24	16	28	1.96
58749859--58749891	13	2.4	14	90	5	50	27	0	3	69	1.03
58757419--58757443	11	2.3	11	100	0	50	40	20	0	40	1.52
58757777--58757867	45	2.0	45	95	0	164	38	8	8	43	1.67
58757760--58757860	22	4.5	22	80	2	121	42	9	9	37	1.72
58759651--58759675	13	1.9	13	100	0	50	20	32	32	16	1.94
58768721--58768836	43	2.7	43	86	5	146	25	16	24	34	1.95
58769310--58769387	33	2.4	33	86	4	104	42	17	17	21	1.89
58772516--58772562	19	2.4	20	82	3	60	57	6	0	36	1.24
58778198--58778509	46	6.7	47	88	2	391	42	15	23	18	1.88
58778197--58778509	140	2.3	138	84	3	405	42	15	23	18	1.88
58778594--58778637	13	3.4	13	77	0	52	38	2	22	36	1.67
58779492--58779558	18	3.6	19	78	6	75	49	13	8	28	1.72
58779669--58779699	6	5.2	6	92	0	53	48	16	19	16	1.81
58779687--58779799	47	2.4	47	87	1	154	43	23	16	15	1.87
58779834--58779858	12	2.1	12	100	0	50	40	20	24	16	1.91
58783335--58783645	80	4.0	78	87	2	444	34	16	11	37	1.85
58783654--58783897	84	2.9	84	85	4	307	35	11	7	45	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58785233--58785305	31	2.3	32	83	6	87	41	0	5	53	1.24
58785597--58785630	11	3.0	11	87	8	50	76	0	23	0	0.79
58785954--58785997	22	1.9	24	86	9	65	52	2	20	25	1.58
58786675--58786781	38	2.7	39	72	7	92	23	20	25	30	1.98
58790796--58790853	23	2.5	23	97	0	107	48	43	1	6	1.40
58791355--58791401	15	3.1	15	73	11	51	51	12	2	34	1.52
58791735--58794056	467	5.0	467	96	0	4292	31	19	8	39	1.82
58794409--58794442	4	8.2	4	87	6	50	0	29	0	70	0.87
58794488--58794519	13	2.5	13	100	0	64	15	6	0	78	0.95
58804795--58804837	21	2.0	21	82	8	52	58	0	6	34	1.25

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   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253