genome.fa.s4.2.7.7.80.10.50.1000.170.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  170  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)
55325302--55325339	12	3.2	12	88	0	58	39	0	60	0	0.97
55326484--55326718	127	1.9	127	84	3	321	41	19	13	25	1.87
55327426--55327498	34	2.2	33	87	2	101	53	1	8	36	1.39
55327509--55327595	38	2.2	40	75	17	94	64	5	0	29	1.17
55329148--55329177	15	1.9	16	93	6	53	16	0	10	73	1.09
55330842--55331652	404	2.0	404	99	0	1613	28	18	18	34	1.94
55333804--55333843	21	1.9	21	84	0	53	30	22	20	27	1.98
55339401--55339439	3	13.0	3	83	0	51	0	28	2	69	1.02
55339393--55339439	15	3.0	15	90	6	67	2	27	2	68	1.13
55339524--55339604	29	2.8	29	74	9	83	24	9	14	50	1.73
55346106--55346161	20	2.8	20	78	13	69	57	1	0	41	1.09
55346098--55346182	39	2.2	37	80	12	100	56	4	0	38	1.20
55346098--55346182	19	4.4	19	77	15	86	56	4	0	38	1.20
55347180--55347209	14	2.1	14	93	0	51	50	0	3	46	1.18
55349022--55349181	41	3.9	41	84	4	191	29	18	26	26	1.98
55348993--55349197	82	2.5	81	81	7	243	30	18	23	27	1.98
55348993--55349181	41	4.6	39	80	7	157	30	16	24	27	1.97
55349725--55349787	7	9.0	7	85	0	72	46	34	1	17	1.58
55349728--55349820	21	4.5	20	76	9	71	50	29	1	19	1.54
55349848--55349942	41	2.3	41	87	3	138	36	16	25	21	1.94
55349964--55350045	7	11.6	7	74	7	58	24	2	21	51	1.60
55349991--55350045	22	2.6	21	80	5	65	21	1	23	52	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55350132--55350180	22	2.3	23	79	13	59	22	0	34	42	1.54
55350398--55350440	22	2.0	22	86	9	61	30	2	34	32	1.71
55350589--55350643	14	3.9	14	73	17	51	21	3	32	41	1.71
55351742--55351783	19	2.3	18	87	4	57	11	9	23	54	1.66
55354973--55355097	43	2.9	44	86	4	175	24	18	25	31	1.98
55355309--55355335	13	2.1	13	100	0	54	25	0	0	74	0.83
55355534--55355643	46	2.4	46	80	7	116	51	0	1	45	1.18
55355597--55355652	29	1.9	29	85	7	78	46	1	0	51	1.11
55357117--55357152	13	2.7	13	95	4	63	75	2	0	22	0.94
55365481--55365521	21	2.0	21	100	0	82	14	43	19	21	1.87
55368053--55368116	23	2.7	24	80	7	67	64	4	1	29	1.23
55369639--55369812	58	3.0	58	93	0	294	36	9	19	34	1.84
55371347--55371401	21	2.7	21	83	10	69	41	3	0	54	1.18
55391069--55391481	98	4.2	98	79	7	385	24	26	20	29	1.99
55391068--55391441	50	7.6	50	77	8	286	24	26	20	29	1.99
55391118--55391387	148	1.8	149	82	3	355	24	25	20	29	1.99
55392763--55392969	53	3.8	54	78	1	209	19	24	18	38	1.93
55396391--55396415	12	2.1	12	100	0	50	40	0	0	60	0.97
55396552--55397087	265	2.0	268	87	5	778	27	19	18	34	1.96
55400028--55400424	47	8.4	47	93	1	641	32	8	28	29	1.87
55400543--55400621	37	2.1	37	88	4	115	25	18	30	25	1.98
55403524--55403556	15	2.1	16	88	5	50	57	3	33	6	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55410974--55411029	28	2.0	28	89	0	85	17	17	23	41	1.90
55413164--55413220	20	2.8	20	83	5	60	54	5	14	26	1.61
55423776--55423814	16	2.3	17	86	8	53	23	5	7	64	1.40
55425022--55425106	42	2.0	42	83	0	107	44	4	7	43	1.52
55425882--55425933	17	2.9	17	80	5	50	32	1	1	63	1.16
55429464--55429543	24	3.4	24	76	11	85	31	15	22	31	1.94
55434696--55434736	20	2.0	20	100	0	82	51	9	9	29	1.67
55435745--55435776	11	2.9	11	95	0	55	31	0	50	18	1.48
55442707--55442744	19	2.0	20	85	15	53	39	23	0	36	1.55
55442968--55443137	46	3.7	46	70	10	130	31	27	18	22	1.98
55443563--55443622	30	2.0	30	90	0	93	31	25	5	38	1.77
55451406--55451461	25	2.2	26	87	6	80	35	21	19	23	1.96
55451858--55451948	24	3.8	24	95	1	146	32	2	37	27	1.69
55453352--55453462	27	4.2	26	81	7	116	18	22	19	38	1.93
55456906--55456980	23	3.2	23	62	23	57	29	10	32	28	1.90
55456759--55457838	339	3.2	339	93	1	1839	30	12	30	26	1.93
55457434--55457511	25	3.2	25	68	23	76	25	8	33	32	1.87
55457554--55457628	24	3.2	24	62	24	59	29	13	32	25	1.93
55457678--55457752	23	3.2	23	62	23	57	29	10	32	28	1.90
55456759--55457838	47	22.4	47	87	4	1557	30	12	30	26	1.93
55456781--55457876	386	2.9	383	86	6	1617	31	12	29	26	1.93
55458068--55458176	37	2.9	37	90	0	164	23	20	29	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55459418--55459724	40	7.8	40	82	8	344	23	21	29	25	1.99
55459424--55459664	78	3.1	79	86	5	335	23	20	29	26	1.99
55459418--55459724	78	3.9	80	81	7	303	23	21	29	25	1.99
55461938--55461989	9	6.1	9	76	19	58	51	0	48	0	1.00
55461938--55461984	16	2.8	17	87	12	71	51	0	48	0	1.00
55462350--55462547	54	3.8	53	82	7	217	25	15	29	29	1.95
55462349--55462547	27	7.6	26	80	7	188	25	15	29	29	1.95
55467188--55468199	47	21.1	47	88	4	1459	31	12	29	26	1.93
55467335--55467409	23	3.2	23	62	23	57	29	10	32	28	1.90
55467549--55467623	22	3.3	22	64	29	57	30	13	30	25	1.94
55467188--55468199	241	4.2	235	90	3	1477	31	12	29	26	1.93
55467650--55467725	23	3.2	25	62	24	63	31	13	31	23	1.93
55467885--55467960	24	3.2	24	62	23	61	28	13	32	25	1.93
55468173--55468263	46	2.0	46	84	0	119	32	9	31	25	1.89
55468408--55468516	37	2.9	37	90	0	164	23	19	30	26	1.98
55469503--55469578	22	3.4	22	70	15	66	34	18	21	26	1.96
55470779--55471603	138	6.1	138	85	4	1131	40	8	5	45	1.59
55470779--55471603	266	3.0	270	86	5	1128	40	8	5	45	1.59
55477116--55477180	27	2.4	27	87	5	96	27	12	20	40	1.88
55477130--55477193	27	2.4	27	78	7	67	26	18	20	34	1.96
55477547--55477608	18	3.4	18	80	4	72	22	22	12	41	1.88
55481036--55481070	17	2.1	17	89	5	54	48	0	22	28	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55481407--55481455	25	2.0	25	83	0	62	38	0	16	44	1.48
55481877--55481920	15	2.8	17	74	19	51	54	0	22	22	1.45
55486101--55486156	16	3.5	16	75	4	60	16	8	0	75	1.05
55486660--55486922	131	2.0	130	79	7	284	38	14	12	34	1.83
55491440--55491536	1	97.0	1	66	0	50	83	0	12	4	0.78
55491442--55491536	7	12.7	7	76	15	75	83	0	12	4	0.79
55491443--55491537	6	15.0	6	76	18	70	82	0	13	4	0.82
55491440--55491528	5	18.8	5	75	14	57	83	0	12	4	0.80
55492677--55493184	44	10.8	44	67	12	206	28	19	24	27	1.98
55493155--55493265	45	2.3	49	81	10	122	29	18	25	27	1.98
55492677--55493216	143	3.8	143	87	0	783	28	19	23	28	1.98
55501595--55501679	42	2.0	42	97	0	161	40	4	5	49	1.48
55501649--55501678	15	2.0	15	93	0	51	50	0	10	40	1.36
55501601--55501701	42	2.4	42	86	5	132	39	1	8	49	1.45
55510846--55510909	5	12.6	5	81	17	62	20	3	0	76	0.92
55510853--55510883	6	5.3	6	96	3	55	16	0	0	83	0.64
55510852--55510909	22	2.5	24	79	20	79	20	1	0	77	0.86
55510854--55510906	28	1.9	27	88	11	81	18	1	0	79	0.83
55512395--55512424	15	2.0	15	93	0	51	50	0	10	40	1.36
55512449--55512480	10	3.3	10	95	4	57	31	6	0	62	1.20
55523370--55523454	40	2.2	40	84	2	109	28	31	22	17	1.97
55523525--55523633	47	2.3	46	87	7	150	27	29	10	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55526186--55526226	20	2.0	20	85	9	55	46	17	7	29	1.74
55527472--55527549	34	2.3	35	84	10	108	25	20	25	28	1.99
55529163--55529347	79	2.3	82	83	7	229	24	27	22	24	2.00
55529144--55529347	40	5.1	40	81	8	229	24	27	22	25	2.00
55536079--55536232	42	3.6	42	81	6	186	30	15	24	29	1.96
55542701--55542747	15	3.1	15	79	14	51	55	4	4	36	1.39
55544093--55544172	40	2.0	39	83	7	99	27	16	28	27	1.97
55544193--55544261	28	2.5	28	81	9	79	33	17	24	24	1.96
55546903--55547192	141	2.1	141	91	0	463	26	16	27	29	1.97
55546788--55547141	49	7.5	47	70	13	181	29	16	27	26	1.97

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