genome.fa.s9.2.7.7.80.10.50.1000.11.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_A09
Parameters: 2 7 7 80 10 50 1000
Length:  77927517

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   

This is table  11  of  250  ( 29906 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)
3147465--3147576	27	4.2	26	79	7	98	16	21	22	39	1.92
3163117--3163196	42	1.9	42	89	5	126	51	5	3	40	1.42
3167653--3167710	32	1.9	30	82	10	73	53	12	5	29	1.59
3167733--3167763	16	1.9	16	93	0	53	58	0	0	41	0.98
3174633--3174674	22	1.9	22	95	0	75	35	14	19	30	1.91
3176060--3176104	15	3.0	15	100	0	90	40	0	20	40	1.52
3179838--3179934	48	2.0	48	85	0	131	24	26	8	40	1.83
3182506--3182541	3	12.0	3	100	0	72	33	0	0	66	0.92
3184645--3184732	30	2.9	30	81	0	104	25	14	20	39	1.90
3185290--3185352	21	3.0	20	76	19	65	6	22	1	69	1.19
3191657--3191702	23	2.0	23	100	0	92	34	21	4	39	1.73
3199588--3199662	20	3.8	20	69	22	59	41	2	10	45	1.53
3203876--3204003	50	2.5	50	88	1	193	38	13	14	33	1.85
3205332--3205382	18	2.8	18	80	13	59	3	19	3	72	1.16
3207963--3208084	50	2.4	51	84	2	183	37	13	14	33	1.86
3208092--3208168	39	2.0	39	94	0	136	42	14	10	32	1.79
3208484--3208533	24	2.1	24	100	0	100	34	8	24	34	1.84
3208520--3208648	60	2.2	60	98	0	249	44	19	13	21	1.85
3208538--3208631	29	3.2	29	61	21	68	45	20	11	22	1.83
3209373--3209412	17	2.4	17	95	0	71	40	35	12	12	1.81
3215535--3215614	37	2.1	38	88	6	119	46	1	2	50	1.23
3218373--3218478	52	2.0	53	98	1	205	30	9	30	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3218447--3220885	925	2.6	917	80	7	2555	39	12	26	22	1.89
3221564--3221590	14	1.9	14	100	0	54	29	7	25	37	1.83
3230419--3230455	19	1.9	19	88	0	56	37	21	16	24	1.93
3230950--3230988	17	2.3	17	90	0	60	38	23	10	28	1.87
3233746--3234390	47	13.6	47	94	2	1060	32	8	29	29	1.87
3233746--3234390	96	6.8	96	93	3	1076	32	8	29	29	1.87
3236613--3236972	40	9.1	40	91	2	537	24	22	27	25	2.00
3236613--3236972	159	2.3	160	91	2	573	24	22	27	25	2.00
3239948--3240285	49	7.1	47	92	2	550	31	8	29	30	1.87
3239948--3240617	47	13.6	49	83	11	804	32	8	29	29	1.87
3239948--3240285	96	3.5	95	95	2	597	31	8	29	30	1.87
3240252--3240308	23	2.5	23	94	2	98	28	14	31	26	1.94
3240205--3240355	70	2.2	70	93	1	259	32	10	29	27	1.90
3240156--3240404	119	2.1	118	93	3	430	32	9	29	28	1.89
3240109--3240453	166	2.1	167	96	1	631	32	9	29	28	1.88
3240060--3240500	215	2.1	214	96	2	805	32	9	29	29	1.88
3249375--3249433	29	2.0	30	90	3	93	49	15	5	30	1.66
3249714--3249774	31	2.0	30	81	6	70	32	8	13	45	1.72
3256548--3256657	55	2.0	57	83	7	145	20	10	13	55	1.68
3259419--3259452	16	2.1	17	94	5	61	23	0	23	52	1.47
3268303--3268349	23	2.0	23	100	0	94	23	8	34	34	1.85
3269116--3269170	24	2.3	24	93	6	94	29	9	16	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3270328--3270369	21	2.0	22	90	4	68	52	0	0	47	1.00
3276416--3276462	25	2.0	25	83	8	62	27	14	4	53	1.60
3276724--3276845	46	2.7	46	89	2	183	18	23	15	42	1.88
3276814--3276886	38	1.9	38	100	0	146	23	26	17	32	1.97
3279019--3279101	31	2.7	32	78	12	93	55	4	1	38	1.29
3284940--3285000	27	2.3	27	77	11	63	18	11	39	31	1.86
3291001--3291047	21	2.1	22	84	7	60	14	34	27	23	1.94
3292250--3292303	27	2.0	27	92	0	90	31	18	16	33	1.93
3295185--3295259	39	1.9	39	83	5	98	29	5	20	45	1.73
3299433--3299471	13	2.9	13	88	3	60	41	0	5	53	1.23
3301026--3301115	30	3.0	30	93	1	146	56	17	12	13	1.67
3301850--3301884	18	1.9	18	94	0	61	14	34	28	22	1.93
3302790--3302826	19	1.9	19	100	0	74	32	37	5	24	1.78
3309546--3309570	13	1.9	13	100	0	50	20	32	24	24	1.98
3311159--3311209	23	2.1	24	82	13	61	70	3	3	21	1.20
3314219--3314411	20	11.1	16	65	24	56	50	1	4	43	1.32
3315158--3315232	3	25.0	3	100	0	150	0	33	0	66	0.92
3318048--3318090	12	3.6	12	78	9	52	27	2	0	69	1.00
3321640--3322475	436	1.9	424	85	3	1118	39	12	8	39	1.73
3324072--3324225	77	2.0	77	92	0	254	38	14	21	25	1.92
3326265--3326306	13	3.3	13	83	6	59	69	2	7	21	1.25
3329845--3329933	31	2.8	31	81	3	97	40	15	22	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3331473--3331805	27	12.3	27	83	1	299	39	20	8	31	1.82
3331473--3331805	54	6.2	54	82	0	362	39	20	8	31	1.82
3331473--3331843	27	13.7	27	79	6	189	38	20	8	32	1.82
3331825--3331992	27	6.2	27	85	0	219	34	19	20	25	1.96
3331825--3332015	54	3.6	54	82	5	228	34	17	21	26	1.96
3331825--3332018	27	7.2	27	81	4	205	34	18	21	26	1.96
3332446--3332510	22	3.0	21	76	13	60	21	23	20	35	1.96
3332669--3332767	27	3.7	27	84	8	121	19	21	21	38	1.94
3332917--3332975	19	3.5	19	68	29	60	18	15	16	49	1.80
3332907--3333032	6	20.3	6	70	20	82	19	15	15	50	1.79
3332907--3333015	31	3.5	31	89	3	148	19	16	14	49	1.80
3334969--3334995	13	2.1	13	100	0	54	33	22	22	22	1.97
3337461--3337518	29	2.0	29	100	0	116	62	0	13	24	1.32
3341306--3341344	20	1.9	20	84	5	51	64	5	10	20	1.44
3342824--3342861	18	2.1	18	85	9	51	52	2	0	44	1.14
3344926--3344964	19	2.1	19	100	0	78	43	0	5	51	1.24
3346704--3346746	13	3.5	13	75	18	56	46	16	2	34	1.60
3347282--3347315	17	1.9	18	88	5	52	70	8	17	2	1.25
3358165--3358207	17	2.6	16	88	7	59	74	0	2	23	0.93
3358173--3358479	9	34.2	8	71	18	71	61	2	2	32	1.24
3358165--3358213	17	2.9	16	82	14	55	75	0	2	22	0.90
3358262--3358464	19	10.7	19	64	17	64	61	3	1	33	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3358264--3358343	29	2.8	29	78	10	76	58	2	2	36	1.25
3358318--3358440	57	2.2	57	83	5	151	60	4	2	31	1.30
3358405--3358472	27	2.6	27	79	13	79	63	1	0	35	1.04
3358186--3358480	10	32.6	9	69	18	129	61	2	2	32	1.24
3359579--3359618	19	2.2	18	86	4	53	57	0	2	40	1.12
3359578--3359622	22	2.0	22	83	8	56	57	0	2	40	1.11
3364554--3364902	97	3.5	97	78	9	283	32	17	21	28	1.96
3369558--3369588	3	10.3	3	100	0	62	67	0	0	32	0.91
3370823--3371078	89	3.0	84	80	8	238	35	13	10	41	1.79
3370924--3371247	77	4.1	79	79	7	284	33	16	12	38	1.85
3371026--3371203	79	2.3	77	86	1	257	30	17	13	38	1.89
3371299--3371452	74	2.1	71	82	5	175	33	11	12	42	1.79
3373579--3373829	49	5.3	46	76	11	188	27	19	29	23	1.98
3380863--3381125	49	5.5	49	73	11	186	28	18	28	25	1.98
3387324--3387356	17	1.9	17	93	0	57	72	0	0	27	0.85
3392661--3392700	6	6.8	6	91	5	55	87	0	5	7	0.66
3392661--3392700	12	3.4	12	93	3	64	87	0	5	7	0.66
3392662--3392709	11	4.4	11	86	5	53	85	0	8	6	0.74
3392661--3392709	17	2.8	17	87	6	62	85	0	8	6	0.73
3393437--3393493	29	2.0	29	89	6	89	22	3	12	61	1.46
3393576--3393615	18	2.2	18	86	8	55	25	0	7	67	1.16
3396604--3396710	34	3.2	32	84	10	115	35	33	14	16	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3400132--3400187	28	2.0	28	96	0	103	32	12	25	30	1.92
3414307--3414354	5	10.2	5	88	2	57	39	12	2	45	1.54
3414307--3414366	10	6.1	10	79	11	52	43	10	1	45	1.47
3414307--3414366	15	4.1	15	79	10	61	43	10	1	45	1.47
3414447--3414504	16	3.3	17	75	15	55	56	0	1	41	1.09
3433428--3433458	15	2.1	15	93	0	53	29	9	19	41	1.83
3434967--3435025	6	9.7	6	85	3	73	45	0	0	54	0.99
3434960--3435013	25	2.2	24	83	6	74	44	0	0	55	0.99
3434967--3435044	37	2.1	37	86	9	106	43	1	0	55	1.08
3434974--3435047	19	3.9	19	82	10	82	40	2	0	56	1.13

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