genome.fa.s3.2.7.7.80.10.50.1000.99.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_A03
Parameters: 2 7 7 80 10 50 1000
Length:  105315579

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325   

This is table  99  of  325  ( 38900 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)
31863011--31863181	7	23.1	7	74	20	111	66	1	1	31	1.07
31863013--31863180	45	4.0	42	75	18	120	65	1	1	32	1.08
31863011--31863181	80	2.2	77	83	11	215	66	1	1	31	1.07
31863206--31863262	9	6.0	9	75	17	53	63	0	1	35	1.05
31863211--31863271	29	2.2	27	88	5	86	65	0	0	34	0.93
31866618--31866649	12	2.6	13	85	14	50	46	0	0	53	1.00
31870274--31870356	27	3.1	27	82	6	105	30	14	24	31	1.94
31870338--31870712	27	13.9	27	81	6	251	40	18	10	30	1.84
31870976--31871094	41	2.9	41	92	0	193	21	22	30	25	1.99
31871236--31871300	22	3.0	22	78	13	71	21	23	21	33	1.97
31883105--31883257	42	3.7	41	76	3	135	26	23	17	32	1.97
31883100--31883280	84	2.1	84	78	5	186	28	23	16	30	1.96
31885683--31885811	44	2.9	44	88	0	204	21	17	28	32	1.96
31890781--31890847	9	7.0	9	77	13	55	52	5	0	41	1.26
31893058--31893314	128	2.0	128	96	0	469	34	5	21	38	1.77
31897003--31897045	18	2.4	18	96	0	77	32	2	16	48	1.58
31910166--31910305	40	3.5	40	95	0	246	21	18	29	30	1.97
31914997--31915056	27	2.3	26	85	2	75	21	23	20	35	1.96
31921330--31921407	29	2.7	28	84	11	104	25	15	30	28	1.96
31921360--31921689	174	1.9	175	91	2	538	30	14	23	31	1.94
31929465--31929698	40	5.9	40	90	0	353	23	27	21	27	1.99
31931852--31931958	46	2.3	46	88	4	162	31	28	18	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31940870--31940995	62	2.0	62	98	0	243	23	24	26	25	2.00
31940910--31940955	22	2.1	22	100	0	92	23	30	30	15	1.95
31940932--31941113	40	4.6	40	92	2	296	23	23	26	26	2.00
31942484--31942609	46	2.7	47	91	4	204	30	28	20	20	1.98
31942486--31942628	46	3.1	45	82	9	125	29	29	20	20	1.98
31945548--31945591	15	2.9	15	86	6	54	52	11	20	15	1.74
31946791--31946821	14	2.2	14	100	0	62	19	22	0	58	1.40
31948885--31948916	16	2.0	16	93	0	55	34	18	0	46	1.49
31957073--31957412	47	7.2	47	90	0	527	33	7	30	28	1.86
31957073--31957412	94	3.6	94	94	0	581	33	7	30	28	1.86
31963040--31963236	50	3.9	50	73	4	162	25	18	23	31	1.97
31963046--31963233	101	1.9	101	85	0	259	25	18	23	32	1.97
31964540--31964585	20	2.3	20	84	0	56	47	4	13	34	1.62
31968011--31968048	14	2.9	13	81	11	51	18	13	10	57	1.63
31973783--31973807	8	3.1	8	100	0	50	12	0	0	88	0.53
31973823--31973878	25	2.1	27	81	12	64	25	8	0	66	1.21
31979203--31979249	19	2.6	18	80	19	53	10	17	42	29	1.82
31979467--31979518	27	1.9	27	96	0	95	44	21	5	28	1.75
31979473--31979559	27	3.2	27	86	3	104	41	19	11	27	1.86
31983305--31983366	27	2.3	27	91	0	97	40	16	16	27	1.89
31984728--31984760	18	1.9	17	88	11	50	42	12	15	30	1.83
31987600--31987631	5	6.4	5	100	0	64	78	0	0	21	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31991445--31991488	19	2.3	19	100	0	88	31	13	29	25	1.94
31997191--31997226	8	4.5	8	89	0	54	38	0	25	36	1.56
31999908--32000341	47	9.3	47	93	2	698	32	7	29	29	1.85
32000074--32000197	25	5.3	25	58	14	66	33	4	29	32	1.78
32000458--32000536	37	2.1	37	88	0	113	24	17	31	26	1.97
32001741--32002124	39	9.8	40	89	3	559	23	20	28	26	1.99
32002300--32002347	25	1.9	25	83	8	62	31	8	31	29	1.87
32005893--32006542	47	13.6	47	90	6	984	32	8	29	30	1.86
32006175--32006485	93	3.0	105	82	15	441	32	7	28	31	1.85
32006284--32006374	46	2.2	37	69	28	92	29	8	29	31	1.87
32006660--32006738	37	2.1	37	88	0	113	24	17	31	26	1.97
32010028--32010127	19	5.3	19	87	7	150	38	9	16	37	1.80
32010018--32010136	36	3.2	35	75	19	98	36	9	15	38	1.79
32012912--32013010	33	2.9	34	79	5	94	43	18	9	29	1.80
32015041--32015124	29	3.0	28	81	8	91	75	0	20	4	0.99
32015039--32015123	36	2.4	34	83	9	109	75	0	20	4	0.98
32015039--32015125	14	6.1	14	71	16	56	75	0	19	4	0.97
32016984--32017011	14	2.0	14	100	0	56	21	28	14	35	1.92
32020021--32020055	17	1.9	19	88	11	56	48	0	14	37	1.44
32020676--32020785	23	5.0	22	70	16	95	20	20	21	37	1.95
32020696--32020771	21	3.5	21	76	7	55	21	22	21	35	1.96
32026306--32026346	16	2.6	16	84	11	57	53	0	2	43	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32029378--32029433	25	2.2	26	79	17	73	60	1	1	35	1.17
32048312--32048523	49	4.4	49	73	13	174	24	28	20	26	1.99
32051345--32051431	43	2.0	43	82	12	108	24	18	29	27	1.98
32055214--32055303	36	2.5	35	82	10	103	3	22	0	74	0.96
32055221--32055302	43	1.9	43	85	5	112	3	21	0	74	0.97
32055213--32055303	7	12.7	7	73	9	67	3	21	0	74	0.96
32078740--32078896	47	3.3	47	85	0	206	37	22	12	27	1.90
32078941--32078980	20	2.0	20	90	0	62	40	17	0	42	1.49
32080679--32080893	48	4.8	48	75	13	213	29	18	25	26	1.98
32080726--32080798	36	2.0	36	91	0	119	30	19	27	23	1.98
32080679--32080834	84	1.9	84	93	0	267	31	19	24	24	1.98
32093203--32093414	49	4.4	49	73	13	174	24	28	20	26	1.99
32096237--32096323	43	2.0	43	82	12	108	24	18	29	27	1.98
32109595--32109656	26	2.3	26	83	2	70	37	27	9	25	1.87
32109760--32109846	27	3.3	26	85	4	111	18	21	21	37	1.94
32117475--32117561	27	3.3	26	83	4	111	19	21	21	36	1.95
32119401--32119482	42	2.0	42	85	9	114	71	0	23	4	1.04
32119395--32119470	23	3.5	23	66	23	56	72	0	22	5	1.04
32124289--32124445	47	3.3	47	86	0	215	36	22	12	28	1.91
32124490--32124529	20	2.0	20	90	0	62	40	17	0	42	1.49
32126228--32126442	48	4.8	48	75	13	213	29	18	25	26	1.98
32126275--32126347	36	2.0	36	91	0	119	30	19	27	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32126228--32126383	84	1.9	84	93	0	267	31	19	24	24	1.98
32129974--32130027	28	1.9	28	88	0	81	16	25	33	24	1.96
32133644--32133708	28	2.3	28	89	5	96	35	29	6	29	1.82
32133814--32133903	27	3.2	27	81	13	103	20	23	22	34	1.97
32133852--32133914	29	2.2	28	80	5	65	23	26	17	31	1.97
32134991--32135024	10	3.3	10	84	8	50	29	8	8	52	1.62
32141139--32141231	28	3.3	28	93	3	152	34	26	7	31	1.84
32141357--32141418	27	2.2	28	85	2	81	20	27	17	33	1.96
32141357--32141428	27	2.6	28	84	4	74	20	26	19	33	1.97
32144418--32144663	49	5.0	49	80	4	260	30	26	17	25	1.98
32144418--32144663	100	2.5	99	81	2	296	30	26	17	25	1.98
32146101--32146125	12	2.1	12	100	0	50	16	0	24	60	1.36
32150942--32151024	43	1.9	43	82	2	103	25	27	16	30	1.97
32166558--32166609	15	3.5	15	72	0	59	28	7	13	50	1.69
32166564--32166625	30	2.1	30	100	0	124	32	9	16	41	1.80
32170086--32170137	16	3.2	16	97	0	95	26	0	36	36	1.57
32170337--32170378	15	2.7	16	82	14	52	52	2	0	45	1.13
32170346--32170387	15	2.9	15	82	10	52	52	0	0	47	1.00
32170377--32170609	54	4.1	54	75	16	245	47	8	1	42	1.43
32170340--32170555	120	1.8	120	98	0	423	49	7	1	41	1.39
32175947--32175994	21	2.3	20	82	10	60	47	0	0	52	1.00
32176604--32176635	16	2.1	15	94	5	55	37	0	9	53	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32176863--32176911	22	2.2	22	82	7	55	40	8	2	48	1.44
32189327--32189373	25	1.9	24	83	12	60	25	44	0	29	1.54
32190542--32190566	13	1.9	13	100	0	50	88	0	0	12	0.53
32191164--32191395	119	2.0	118	83	4	297	40	11	9	39	1.73
32191491--32191527	11	2.9	13	80	19	51	51	2	0	45	1.15
32196116--32196281	54	3.0	53	80	5	170	24	25	15	34	1.94
32198461--32198635	49	3.5	49	85	3	260	29	26	18	25	1.98
32198448--32198642	49	3.9	49	84	2	255	28	26	19	25	1.99
32198448--32198640	100	1.9	100	96	0	359	28	25	19	25	1.99
32200309--32200445	71	2.0	68	84	9	179	40	3	4	51	1.39

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325