genome.fa.s4.2.7.7.80.10.50.1000.128.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  128  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)
40697078--40697283	54	3.8	54	82	5	220	39	20	10	29	1.85
40697109--40697283	81	2.2	81	79	8	194	40	21	10	28	1.86
40697109--40697377	27	9.9	27	76	10	136	39	20	11	29	1.87
40697832--40698220	27	14.4	27	76	6	225	39	18	10	31	1.84
40698076--40698193	55	2.2	54	83	4	139	42	15	9	33	1.79
40696611--40698252	821	2.0	820	95	0	2964	33	18	19	29	1.95
40698460--40698537	41	1.9	41	89	0	120	23	21	28	26	1.99
40701676--40701727	27	1.9	27	88	7	79	36	15	17	30	1.91
40701758--40702091	54	6.2	54	80	6	284	38	19	11	30	1.86
40701749--40702098	27	13.0	26	78	8	249	38	18	11	31	1.86
40702356--40702473	41	2.9	41	85	0	155	22	20	27	28	1.99
40702610--40702674	22	3.0	22	77	8	69	21	24	23	30	1.99
40709185--40709454	30	9.1	30	74	7	201	25	24	11	38	1.89
40709185--40709444	90	2.9	89	87	3	369	25	24	10	39	1.88
40711823--40711876	26	2.1	26	85	0	72	50	9	12	27	1.71
40715521--40715713	40	4.8	40	92	1	291	22	24	29	23	1.99
40723619--40723803	40	4.6	40	90	4	275	25	26	23	23	2.00
40729727--40730294	47	12.1	47	93	1	852	31	9	30	27	1.89
40730413--40730491	37	2.1	37	90	0	122	24	18	31	25	1.98
40732291--40732392	43	2.4	43	98	1	197	22	15	35	26	1.94
40732374--40732447	29	2.6	29	89	4	105	25	16	32	25	1.96
40732757--40733030	40	6.9	40	91	1	408	23	22	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40732757--40733030	79	3.5	79	89	2	397	23	22	28	25	1.99
40732757--40733030	119	2.3	119	89	1	415	23	22	28	25	1.99
40736493--40737014	47	11.1	47	93	2	818	31	9	30	28	1.89
40736493--40737007	278	1.8	282	90	2	840	31	9	30	29	1.88
40737177--40737255	37	2.1	37	90	0	122	24	18	31	25	1.98
40748810--40748866	30	1.9	30	88	0	87	42	7	24	26	1.80
40749291--40749463	46	3.8	45	77	13	190	22	20	27	30	1.98
40749288--40749458	93	1.8	93	93	0	297	22	20	28	29	1.98
40751479--40751521	18	2.4	18	100	0	86	41	4	23	30	1.74
40752104--40752265	86	1.9	85	83	8	213	25	16	25	33	1.96
40752104--40752273	43	4.0	44	72	13	156	24	15	25	33	1.95
40758948--40759026	37	2.1	37	90	0	122	25	31	18	24	1.98
40759145--40759497	47	7.3	47	90	5	544	29	30	8	32	1.87
40759145--40759497	98	3.7	94	90	4	544	29	30	8	32	1.87
40759156--40759497	145	2.4	145	95	0	603	29	30	9	31	1.88
40763131--40763155	13	1.9	13	100	0	50	48	0	0	52	1.00
40764313--40764440	43	3.0	42	85	8	168	25	17	27	28	1.98
40766421--40766558	40	3.5	40	86	4	174	22	28	23	24	1.99
40770871--40770979	27	4.0	26	84	8	137	37	22	23	15	1.93
40770871--40770979	54	2.0	54	87	3	157	37	22	23	15	1.93
40774434--40774465	15	2.1	16	94	5	57	43	12	6	37	1.68
40776669--40776869	55	3.7	54	79	4	192	22	24	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40776855--40776976	47	2.6	47	94	0	217	26	24	13	36	1.92
40786062--40786093	15	2.1	15	100	0	64	53	15	6	25	1.65
40786116--40786145	15	1.9	16	93	6	53	40	6	6	46	1.56
40786671--40786713	20	2.2	20	95	0	77	55	0	2	41	1.12
40786789--40786826	19	2.0	19	100	0	76	47	10	10	31	1.72
40788217--40788405	55	3.5	53	82	5	209	21	23	17	36	1.95
40788217--40788419	54	3.7	55	82	4	216	22	23	16	37	1.94
40788396--40788513	47	2.5	47	97	0	218	25	24	13	36	1.92
40796496--40796540	19	2.3	20	81	11	58	28	26	15	28	1.96
40809524--40809589	28	2.4	28	82	5	80	31	22	18	27	1.97
40813441--40813556	27	4.3	27	82	2	135	35	15	22	26	1.94
40813441--40813554	53	2.1	54	84	6	144	35	15	22	26	1.94
40814208--40814258	27	1.9	26	84	4	66	19	29	15	35	1.93
40828858--40828929	34	2.1	34	89	2	110	25	30	18	26	1.98
40829048--40829600	45	12.1	46	88	5	491	28	30	9	31	1.89
40829103--40829597	91	5.4	92	91	4	745	28	29	9	31	1.89
40829097--40829597	47	10.9	47	91	5	742	28	29	9	31	1.89
40829105--40829559	183	2.5	183	91	3	758	28	30	9	31	1.89
40833000--40833188	39	4.8	40	88	2	258	25	28	22	23	1.99
40833000--40833188	79	2.4	79	86	4	256	25	28	22	23	1.99
40833520--40833598	29	2.7	29	86	5	106	27	32	15	24	1.95
40833583--40833721	42	3.3	42	89	5	228	29	33	12	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40835567--40835645	37	2.1	37	90	0	122	25	31	18	24	1.98
40835808--40836330	47	11.1	47	94	1	818	28	30	9	31	1.89
40847459--40847655	50	3.9	50	82	1	234	27	19	25	27	1.99
40847460--40847655	49	3.9	49	82	2	230	27	19	26	27	1.99
40853860--40853891	15	2.0	17	88	11	50	31	3	18	46	1.65
40854106--40854141	18	2.0	18	89	10	56	22	22	27	27	1.99
40854155--40854333	47	3.9	45	73	17	145	29	20	28	21	1.98
40858735--40859258	47	11.1	47	94	0	843	31	9	30	28	1.89
40858735--40859252	281	1.8	282	91	0	867	31	9	30	28	1.89
40858735--40859302	234	2.4	235	89	1	870	31	9	30	27	1.89
40859421--40859499	37	2.1	37	90	0	122	24	18	31	25	1.98
40861575--40861933	47	7.6	47	92	2	549	29	29	8	32	1.87
40865522--40865703	40	4.6	40	88	0	265	26	27	21	24	1.99
40865522--40865703	80	2.3	80	92	0	292	26	27	21	24	1.99
40865612--40865799	96	2.0	96	100	0	376	27	26	21	25	2.00
40865709--40865925	40	5.4	40	91	0	337	27	27	20	24	1.99
40865572--40865839	136	2.0	136	87	1	394	27	26	21	25	1.99
40865540--40865874	176	1.9	176	93	0	580	27	26	21	24	1.99
40873420--40873456	18	2.1	18	94	0	65	45	18	10	24	1.81
40880911--40880949	21	1.9	21	84	5	53	64	5	2	28	1.28
40881279--40881317	7	5.6	7	100	0	78	74	0	0	25	0.82
40888054--40888079	6	4.3	6	100	0	52	19	0	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40897985--40898030	24	1.9	24	95	0	83	32	23	21	21	1.98
40898734--40898949	47	4.7	44	75	14	145	26	21	29	22	1.99
40905408--40905432	6	4.2	6	100	0	50	84	0	16	0	0.63
40905806--40906077	47	5.8	45	74	14	205	26	19	31	22	1.98
40909704--40909755	24	2.2	24	86	3	70	13	28	23	34	1.92
40909744--40909788	23	2.0	23	86	0	63	24	24	17	33	1.96
40915092--40915188	49	2.0	49	84	8	126	24	15	15	44	1.85
40916069--40916165	30	3.2	31	73	5	101	27	28	15	27	1.96
40917614--40917658	18	2.5	18	85	7	56	48	6	0	44	1.29
40918285--40918320	17	2.1	18	90	10	58	27	16	0	55	1.42
40921019--40921105	13	6.5	14	76	17	69	34	18	2	44	1.62
40921017--40921105	40	2.2	40	91	0	151	33	20	2	43	1.64
40921019--40921084	27	2.4	28	82	12	84	34	16	1	46	1.56
40924166--40924294	49	2.6	49	83	7	163	24	26	20	29	1.99
40924114--40924294	98	1.9	97	82	3	229	24	27	20	27	1.99
40924208--40924317	49	2.2	49	75	4	114	23	29	22	24	1.99
40925112--40925162	20	2.7	18	82	14	59	37	21	0	41	1.54
40928674--40928708	7	5.0	7	96	0	61	74	0	25	0	0.82
40932154--40932275	46	2.6	47	84	5	147	26	22	14	36	1.93
40936586--40936611	13	2.0	13	100	0	52	23	0	30	46	1.53
40943141--40943201	17	3.6	17	93	2	97	14	27	37	19	1.91
40959951--40959975	9	2.8	9	100	0	50	32	44	12	12	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40964743--40964830	27	3.3	26	75	1	86	30	30	9	29	1.88
40964732--40964838	27	4.0	26	73	6	81	29	29	9	30	1.88
40964947--40965025	27	3.0	26	76	9	79	29	25	13	31	1.94
40965142--40965242	50	2.0	50	84	3	132	26	23	13	35	1.93
40967490--40967593	43	2.5	42	81	9	122	26	25	16	31	1.96
40971709--40971787	37	2.1	37	88	4	115	25	30	18	25	1.98
40971906--40972334	47	9.1	47	91	2	637	28	29	9	32	1.88
40971906--40972334	143	3.0	143	90	3	645	28	29	9	32	1.88
40979151--40979182	7	4.6	7	96	0	55	50	15	3	31	1.60
40988448--40988473	13	2.0	13	100	0	52	23	46	0	30	1.53

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