genome.fa.s4.2.7.7.80.10.50.1000.111.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   254   255   

This is table  111  of  255  ( 30512 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)
35159129--35159268	56	2.5	56	85	4	174	33	22	14	30	1.93
35159148--35159268	56	2.2	56	90	0	188	34	23	13	28	1.92
35164718--35164748	11	2.7	11	95	5	53	35	0	25	38	1.56
35168636--35168912	40	6.9	40	93	0	464	25	21	28	23	1.99
35176848--35177084	40	5.9	40	93	0	402	26	21	28	24	1.99
35181364--35181491	43	3.0	43	79	8	145	21	16	28	34	1.95
35187203--35187317	37	3.1	37	90	5	178	26	32	20	20	1.97
35187480--35187853	47	8.0	47	88	0	532	27	29	11	31	1.91
35187755--35187828	23	3.2	22	67	27	55	25	32	12	29	1.92
35191955--35192466	120	4.3	120	91	0	799	26	27	20	25	1.99
35191955--35192457	40	12.6	40	89	0	718	26	27	21	25	1.99
35193710--35193861	37	4.1	37	92	0	232	25	32	20	21	1.97
35194024--35194397	47	8.0	47	89	0	559	27	29	11	31	1.91
35194299--35194372	23	3.2	22	67	27	55	25	32	12	29	1.92
35208068--35208208	42	3.3	42	83	7	160	32	24	19	23	1.97
35208049--35208207	44	3.7	43	77	10	164	31	25	19	23	1.98
35209006--35209034	11	2.5	12	88	11	51	6	17	0	75	1.01
35217005--35217086	42	2.0	42	97	0	155	23	13	25	37	1.91
35219369--35219495	38	3.0	40	71	18	132	31	25	12	29	1.93
35219420--35219595	48	3.7	48	89	0	255	30	22	14	32	1.94
35225616--35225784	38	4.2	38	75	12	176	30	24	14	30	1.95
35225623--35225830	85	2.4	86	91	0	328	28	25	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35225741--35225880	48	2.9	48	91	0	226	27	22	16	32	1.96
35227928--35227960	12	2.8	12	86	4	50	54	0	36	9	1.32
35228411--35228440	10	3.0	10	95	0	51	70	3	0	26	1.03
35234087--35234190	42	2.5	42	95	0	181	30	17	25	26	1.97
35239002--35239264	40	6.6	40	85	3	289	26	28	19	25	1.99
35247260--35247387	42	3.0	43	84	6	161	28	28	18	25	1.98
35253342--35253559	48	4.6	48	83	7	266	27	16	28	27	1.97
35253340--35253559	96	2.3	95	85	8	295	27	17	28	26	1.97
35254504--35254535	12	2.7	12	95	0	55	31	25	34	9	1.87
35267838--35267980	39	3.7	39	87	2	191	30	26	22	20	1.99
35272340--35272413	29	2.6	29	86	4	96	27	16	32	24	1.96
35274235--35274409	46	3.8	46	75	13	169	25	30	18	25	1.98
35282017--35282273	45	5.6	46	85	3	234	45	15	20	18	1.86
35282059--35282273	45	4.7	46	88	2	245	45	16	20	17	1.85
35288872--35288911	19	2.2	18	95	4	71	42	15	2	40	1.60
35292590--35292629	19	2.2	18	95	4	71	42	15	2	40	1.60
35293780--35293830	21	2.4	21	100	0	102	50	17	0	31	1.46
35295819--35296081	120	2.2	119	82	4	316	26	28	20	24	1.99
35295819--35296028	40	5.3	40	92	0	314	26	29	20	23	1.99
35295822--35296081	80	3.3	80	86	3	267	25	28	21	24	1.99
35296013--35296090	40	1.9	41	82	10	97	26	28	21	23	1.99
35298860--35298930	16	4.4	16	89	0	106	36	5	28	29	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35298912--35299005	44	2.1	44	90	4	143	34	5	25	35	1.79
35298907--35299020	39	2.7	39	76	18	104	32	5	25	36	1.78
35299177--35299209	17	1.9	17	100	0	66	63	0	0	36	0.95
35299712--35299746	18	1.9	18	88	0	52	34	20	17	28	1.95
35299754--35299998	40	6.1	40	91	0	373	33	15	8	42	1.78
35299750--35299998	120	2.1	120	93	0	417	32	15	9	42	1.78
35305702--35305735	17	2.0	17	100	0	68	35	11	23	29	1.90
35306078--35306141	31	2.1	31	96	0	119	54	9	20	15	1.68
35311541--35311594	28	1.9	28	100	0	108	20	22	9	48	1.78
35311584--35311713	33	3.9	33	93	0	215	33	40	8	17	1.80
35314645--35314743	51	1.9	52	97	2	191	43	12	10	34	1.76
35320852--35320904	23	2.3	22	75	12	54	45	1	13	39	1.54
35321268--35321319	19	2.7	20	76	11	63	32	23	13	30	1.93
35321267--35321319	20	2.7	20	77	11	65	32	22	13	32	1.92
35328665--35328709	15	3.0	15	76	0	54	57	15	22	4	1.56
35329864--35330042	85	2.1	85	98	0	349	37	8	27	26	1.85
35332251--35332567	47	6.6	47	88	5	447	31	11	30	25	1.92
35332377--35332451	23	3.2	23	62	23	57	29	10	32	28	1.90
35332541--35332631	46	2.0	46	84	0	119	32	9	31	25	1.89
35332251--35332576	147	2.3	140	88	4	411	31	12	30	25	1.92
35332778--35332886	37	2.9	37	94	0	182	23	19	30	26	1.98
35333863--35333973	42	2.6	42	85	0	132	19	35	21	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35336262--35336493	49	4.7	49	79	3	257	30	26	17	25	1.97
35338215--35338392	40	4.5	40	90	3	238	24	24	28	23	2.00
35342460--35342505	20	2.3	20	81	7	58	73	4	4	17	1.15
35343086--35343122	19	2.0	19	94	5	67	21	5	13	59	1.54
35343104--35343159	27	2.0	27	82	3	67	32	8	10	48	1.69
35346099--35346157	30	1.9	31	86	3	84	47	1	22	28	1.61
35346367--35346432	30	2.2	30	83	5	89	36	0	3	60	1.12
35348742--35348782	18	2.4	16	88	8	55	80	0	17	2	0.82
35348752--35348798	20	2.3	21	78	14	53	74	0	21	4	0.99
35354382--35354492	42	2.6	43	86	1	152	26	20	27	25	1.99
35362730--35362764	18	1.9	18	94	0	61	20	31	2	45	1.65
35364211--35364273	26	2.6	24	76	16	67	53	3	0	42	1.16
35372965--35373176	39	5.5	39	87	3	277	23	21	26	29	1.99
35374642--35374721	34	2.4	34	82	4	99	30	18	23	27	1.98
35379631--35379729	41	2.3	43	81	10	116	28	14	30	27	1.95
35385099--35385152	25	2.2	25	100	0	108	64	3	3	27	1.27
35387166--35387694	180	3.0	174	83	6	658	26	23	17	32	1.97
35391947--35391999	27	2.0	27	100	0	106	49	15	9	26	1.74
35395614--35395653	19	2.1	19	86	9	55	42	12	20	25	1.86
35398834--35399284	47	9.6	47	93	1	733	28	29	8	32	1.87
35408129--35408312	40	4.6	40	80	10	207	25	28	22	23	1.99
35408096--35408312	79	2.7	78	82	7	242	25	27	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35409480--35409658	85	2.1	85	100	0	358	26	27	8	37	1.85
35410831--35412375	774	2.0	775	85	4	2112	29	14	16	38	1.89
35415515--35415660	38	3.8	38	85	5	179	21	22	26	29	1.99
35441398--35441433	18	2.0	18	94	0	63	30	19	11	38	1.86
35444309--35444667	47	7.6	47	92	2	540	32	8	29	28	1.87
35446926--35447134	40	5.2	40	92	0	348	23	22	27	26	1.99
35447052--35447243	96	2.0	96	98	0	375	25	22	25	26	2.00
35447012--35447283	136	2.0	136	88	0	400	25	22	25	26	2.00
35447148--35447329	80	2.3	80	92	0	292	24	21	27	26	1.99
35446972--35447310	176	1.9	176	93	0	579	24	22	26	26	2.00
35447148--35447329	40	4.6	40	88	0	256	24	21	27	26	1.99
35450919--35451226	96	3.2	94	91	4	465	32	7	29	30	1.86
35450919--35451226	47	6.5	47	94	1	517	32	7	29	30	1.86
35466800--35466932	67	2.0	67	86	5	189	21	26	21	30	1.98
35473087--35473126	8	5.0	8	87	0	62	25	32	37	5	1.77
35473087--35473126	16	2.5	16	100	0	80	25	32	37	5	1.77
35480263--35480563	39	7.7	40	89	6	408	25	22	27	24	2.00
35488332--35488592	39	6.6	39	86	6	311	25	21	27	24	1.99
35488332--35488625	79	3.7	77	81	9	287	26	21	27	24	1.99
35499215--35499259	17	2.6	17	92	0	72	8	37	40	13	1.76
35506352--35506383	12	2.6	13	90	9	50	50	25	6	18	1.70
35513491--35513522	12	2.6	13	90	9	50	50	25	6	18	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35527073--35527110	20	1.9	20	88	0	58	36	2	10	50	1.51
35538590--35538804	46	4.6	45	72	10	146	28	20	27	23	1.99
35538590--35538851	47	5.6	46	74	10	194	28	19	27	24	1.98
35540609--35540957	170	2.0	171	83	2	434	31	14	22	32	1.93
35542385--35542569	79	2.3	81	83	7	227	24	22	27	25	2.00
35542385--35542569	40	4.7	40	85	6	216	24	22	27	25	2.00
35542438--35542602	79	2.1	79	83	6	201	26	20	27	26	1.99
35545610--35545897	40	7.2	40	85	3	357	22	20	28	27	1.99
35545625--35545897	120	2.3	120	95	1	485	23	20	28	27	1.99
35553873--35554091	40	5.5	40	85	4	291	23	21	28	26	1.99

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   254   255