genome.fa.s19.2.7.7.80.10.50.1000.56.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   

This is table  56  of  230  ( 27491 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)
15220071--15220097	13	2.1	13	100	0	54	22	0	0	77	0.76
15220087--15220281	96	2.1	93	86	8	270	48	2	4	44	1.37
15220084--15220287	97	2.1	99	82	13	271	46	2	4	46	1.36
15220959--15221076	41	2.9	41	87	0	164	20	20	29	29	1.97
15221565--15221612	14	3.3	15	85	2	55	22	0	29	47	1.51
15221607--15221653	24	1.9	25	91	4	78	19	0	44	36	1.51
15221631--15221709	7	11.0	7	75	10	52	17	0	40	41	1.50
15227292--15227382	43	2.1	43	87	2	130	34	10	9	45	1.73
15227744--15228051	43	7.2	43	78	1	287	24	18	27	29	1.98
15227739--15228051	129	2.4	128	83	2	360	24	18	27	30	1.98
15232697--15232808	12	8.8	12	66	20	50	53	1	2	41	1.25
15232699--15232794	17	5.7	18	72	24	68	53	2	3	41	1.28
15233835--15234025	43	4.5	43	79	5	185	34	27	13	24	1.93
15238211--15238266	12	4.8	11	75	18	51	44	5	0	50	1.25
15238205--15238272	35	1.9	35	93	0	118	41	4	1	52	1.30
15238223--15238413	23	7.7	25	74	18	177	40	5	0	53	1.27
15238229--15238414	27	7.4	27	73	18	145	40	5	0	53	1.28
15238223--15238420	50	4.0	50	93	1	335	40	5	0	53	1.27
15238696--15238725	15	2.0	15	93	0	51	36	40	3	20	1.69
15238766--15238805	8	5.1	8	93	3	64	47	27	0	25	1.52
15238815--15238987	74	2.2	74	82	7	193	46	24	0	28	1.57
15239042--15239074	14	2.3	15	94	5	59	36	33	0	30	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15239436--15239633	41	4.9	41	85	4	267	29	27	21	21	1.98
15239436--15239628	81	2.4	82	85	4	273	30	26	21	21	1.98
15240511--15241112	300	2.0	300	99	0	1186	36	18	12	32	1.88
15245950--15246442	249	2.0	246	91	1	797	46	13	22	16	1.82
15252442--15252493	20	2.8	18	78	21	63	51	3	1	42	1.31
15252487--15252552	25	2.7	24	73	19	64	56	0	1	42	1.08
15252489--15252553	14	4.9	14	71	19	50	55	0	1	43	1.09
15255935--15256070	43	3.2	43	85	4	193	26	29	18	25	1.98
15258319--15258951	282	2.2	276	85	7	824	40	18	18	21	1.91
15259580--15259737	76	2.1	77	84	7	205	30	11	14	43	1.81
15260369--15260420	21	2.4	22	83	3	70	38	40	0	21	1.53
15260402--15260564	89	1.8	89	89	0	254	44	26	1	26	1.64
15260401--15260587	89	2.1	89	82	2	232	45	26	1	26	1.63
15260580--15260626	14	3.4	14	81	0	58	31	42	0	25	1.55
15260563--15260645	28	2.9	28	76	5	78	38	34	0	26	1.57
15261160--15261266	40	2.7	40	82	5	130	19	22	22	35	1.96
15263705--15263759	21	2.6	21	77	5	58	25	25	25	23	2.00
15264760--15264804	16	2.8	16	77	12	56	33	0	2	64	1.06
15264758--15264815	30	1.9	30	85	0	80	34	1	1	62	1.16
15269665--15269816	26	5.9	26	67	13	80	58	7	7	26	1.52
15269782--15269828	24	2.0	22	84	8	58	57	6	6	29	1.49
15270883--15270915	17	1.9	17	100	0	66	6	0	9	84	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15279167--15279233	32	2.1	33	91	2	109	40	7	1	50	1.39
15279171--15279262	32	2.9	32	82	9	100	38	6	1	54	1.34
15292014--15292115	41	2.5	41	83	0	123	22	26	15	35	1.94
15292053--15292139	41	2.1	41	87	4	122	21	29	17	31	1.96
15306804--15306885	30	2.8	30	85	8	107	42	1	0	56	1.07
15308000--15308066	33	2.1	31	83	8	82	49	2	1	46	1.26
15312762--15312806	22	2.0	23	86	4	65	42	17	2	37	1.62
15312759--15312859	19	5.0	19	78	12	103	40	15	5	37	1.72
15312796--15312858	21	3.1	21	86	9	94	38	14	7	39	1.75
15312759--15312858	40	2.4	41	83	6	123	41	15	6	38	1.71
15313428--15313670	50	4.8	50	85	2	281	22	30	20	26	1.99
15313428--15313670	100	2.4	100	86	2	317	22	30	20	26	1.99
15330446--15330480	2	17.5	2	100	0	70	0	48	0	51	1.00
15334232--15334323	29	3.1	29	82	3	112	23	21	14	40	1.90
15334305--15334489	29	6.4	29	76	6	178	25	27	11	35	1.90
15345787--15345884	27	3.7	27	70	8	74	23	21	23	31	1.98
15347414--15347460	24	2.0	24	83	8	60	23	34	6	36	1.80
15352835--15352875	15	2.5	17	88	7	59	51	7	12	29	1.66
15360048--15360091	21	2.4	17	74	25	52	45	11	13	29	1.79
15360053--15360095	21	2.0	21	100	0	86	39	13	13	32	1.85
15362628--15362816	29	6.5	29	82	6	143	23	24	12	39	1.90
15362628--15362821	58	3.3	58	73	11	189	23	23	13	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15362564--15362787	87	2.6	87	83	5	272	25	25	11	37	1.89
15368481--15368730	124	2.0	124	98	0	482	34	7	20	37	1.81
15376977--15377009	3	11.0	3	93	0	57	3	33	33	30	1.73
15377043--15377121	6	13.2	6	91	0	77	22	18	39	18	1.93
15377075--15377125	6	8.5	6	97	0	84	19	17	45	17	1.86
15384594--15384999	120	3.3	123	87	4	604	32	16	19	30	1.95
15387499--15387541	18	2.4	18	80	0	50	46	9	25	18	1.79
15388056--15388139	19	4.4	18	82	8	80	38	8	17	35	1.80
15388058--15388132	19	3.8	19	91	6	123	37	9	16	37	1.80
15388059--15388121	21	3.1	21	95	4	112	38	9	14	38	1.78
15388071--15388155	21	4.0	22	79	14	81	37	7	16	38	1.76
15388121--15388165	23	2.0	23	86	4	65	33	4	15	46	1.66
15388339--15388379	20	2.0	22	85	9	59	14	9	4	70	1.30
15388623--15388772	46	3.3	45	75	18	143	32	10	9	47	1.70
15388641--15388751	44	2.4	45	85	7	134	33	9	9	48	1.66
15388688--15388765	23	3.3	23	80	5	95	30	6	6	56	1.50
15388962--15389023	32	1.9	33	86	3	90	35	11	1	51	1.47
15389221--15389262	19	2.2	20	82	4	50	30	7	11	50	1.66
15394971--15395382	132	3.1	132	91	0	655	30	19	24	25	1.98
15395453--15396392	44	21.6	44	69	14	375	29	20	22	27	1.98
15395538--15395994	173	2.6	173	82	7	432	28	19	22	28	1.98
15395493--15396347	390	2.2	391	86	3	1168	29	20	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15395349--15395919	217	2.6	215	87	4	824	28	20	23	27	1.99
15395370--15396259	217	4.1	215	81	7	805	28	19	23	28	1.98
15395710--15396127	173	2.4	173	89	5	634	27	19	23	29	1.98
15395453--15396357	89	10.4	88	67	16	315	29	20	22	27	1.98
15396691--15396743	19	3.0	17	78	10	61	35	9	18	35	1.84
15396715--15396759	23	2.0	23	91	4	74	37	4	17	40	1.70
15396725--15396769	23	2.0	23	86	4	65	33	4	15	46	1.66
15396940--15396980	20	2.0	22	85	9	59	14	9	4	70	1.30
15397228--15397358	23	5.8	23	69	21	89	31	7	9	51	1.61
15397237--15397362	44	2.9	44	88	4	168	30	7	9	52	1.61
15397554--15397615	32	1.9	33	86	3	90	35	11	1	51	1.47
15397813--15397854	19	2.2	20	82	4	50	30	7	11	50	1.66
15398816--15398853	20	1.9	20	84	10	51	52	5	5	36	1.47
15399851--15399902	11	4.7	12	73	21	51	42	1	30	25	1.66
15399853--15399902	22	2.3	22	89	6	75	42	2	32	24	1.66
15401397--15401468	32	2.3	32	90	2	110	40	4	1	54	1.28
15401405--15401537	28	4.7	26	75	22	85	44	3	0	52	1.16
15401437--15401569	54	2.4	54	73	16	121	44	3	0	51	1.22
15408156--15408199	20	2.2	20	87	0	61	9	27	25	38	1.86
15411251--15411336	37	2.3	37	77	2	91	20	19	25	33	1.97
15423849--15423893	22	2.0	23	91	4	74	37	8	11	42	1.72
15427009--15427254	123	2.0	123	100	0	492	30	14	17	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15431428--15431507	38	2.1	38	92	0	133	45	16	5	33	1.69
15436651--15436677	4	6.8	4	100	0	54	51	0	0	48	1.00
15441310--15441356	3	15.7	3	86	0	67	29	4	2	63	1.25
15443186--15443531	124	2.8	124	95	0	620	29	16	21	32	1.95
15447535--15447591	19	2.9	19	79	7	62	59	1	1	36	1.18
15448362--15448391	6	5.0	6	100	0	60	33	0	0	66	0.92
15452336--15452376	21	1.9	22	85	5	57	21	7	4	65	1.37
15456653--15456708	27	2.1	27	96	0	103	19	28	17	33	1.95
15460826--15460873	3	16.0	3	100	0	96	33	0	33	33	1.58
15461664--15461696	11	2.8	12	86	9	50	66	0	0	33	0.92

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