genome.fa.s4.2.7.7.80.10.50.1000.145.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  145  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)
46949927--46950005	37	2.1	37	90	0	122	25	31	18	24	1.98
46950123--46950517	47	8.7	47	88	10	565	29	29	8	31	1.88
46950259--46950504	123	2.0	128	95	4	448	30	28	7	32	1.84
46955975--46956040	30	2.2	30	94	2	116	21	27	33	18	1.96
46957184--46957213	7	4.4	7	95	4	53	76	0	10	13	1.01
46960506--46960619	54	2.1	54	96	0	210	32	8	19	39	1.82
46960972--46961061	29	3.1	29	88	1	128	27	15	27	28	1.96
46963987--46964017	16	1.9	16	93	0	53	51	19	6	22	1.69
46965483--46965568	28	3.0	28	81	3	100	31	12	27	27	1.93
46965483--46965543	29	2.1	28	84	3	77	31	13	26	29	1.93
46966888--46967060	46	3.7	46	71	13	138	30	23	20	26	1.99
46966893--46967098	93	2.2	93	86	0	295	29	25	19	25	1.98
46967595--46967627	17	1.9	17	88	11	50	36	3	0	60	1.12
46976553--46977079	40	13.2	40	94	0	894	28	18	28	24	1.98
46981120--46981152	14	2.3	15	89	5	50	24	0	18	57	1.40
46985009--46985050	20	2.1	20	95	0	75	19	19	11	50	1.78
46985980--46986018	19	2.0	20	85	5	53	51	12	2	33	1.54
46988161--46988229	21	3.2	21	67	25	54	8	18	1	71	1.20
46989872--46990078	40	5.2	40	86	2	247	29	28	19	22	1.98
46997445--46997513	21	3.2	21	67	25	54	8	18	1	71	1.20
46999154--46999360	40	5.2	40	87	2	256	29	28	19	22	1.98
47006732--47006800	21	3.2	21	67	25	54	8	18	1	71	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47008443--47008649	40	5.2	40	87	2	256	29	28	19	22	1.98
47019620--47019794	40	4.4	40	91	0	278	21	21	28	28	1.99
47022897--47022947	15	3.5	15	72	20	54	49	1	5	43	1.38
47023779--47024014	26	9.1	26	75	3	170	19	16	27	37	1.92
47023779--47023972	52	3.7	52	81	1	201	18	17	26	37	1.93
47024601--47024665	27	2.4	28	78	19	68	41	3	18	36	1.66
47026201--47026225	9	2.8	9	100	0	50	12	36	24	28	1.91
47026210--47026294	28	3.0	28	83	6	91	25	31	15	27	1.95
47026335--47026414	40	2.0	40	90	0	124	26	28	20	25	1.99
47039156--47039181	9	2.9	9	100	0	52	34	23	19	23	1.96
47044181--47044374	40	4.9	40	94	0	327	26	22	28	22	1.99
47044181--47044401	80	2.8	80	88	2	331	27	23	27	21	1.99
47045796--47045871	29	2.6	29	97	0	143	15	30	39	14	1.88
47045818--47045879	17	3.9	17	72	20	71	14	32	40	12	1.84
47047742--47047959	40	5.5	40	86	2	253	23	23	27	26	2.00
47052896--47053158	47	5.6	47	96	0	481	31	8	28	30	1.87
47053075--47053155	22	3.5	23	66	11	67	30	9	28	30	1.89
47053122--47053189	31	2.2	31	97	0	127	29	11	27	30	1.92
47053075--47053236	78	2.1	78	97	0	306	30	9	28	30	1.89
47052981--47053332	172	2.0	173	96	1	643	31	8	28	30	1.87
47053174--47053253	25	3.3	25	62	10	67	32	5	28	33	1.79
47052908--47053363	125	3.3	141	84	12	588	32	8	28	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47053153--47053363	47	4.4	47	95	2	343	31	8	28	30	1.87
47053153--47053363	96	2.2	95	92	5	345	31	8	28	30	1.87
47053177--47053387	49	4.6	46	92	6	228	31	6	30	31	1.83
47053523--47053601	37	2.1	37	88	0	113	25	18	30	25	1.98
47055455--47055553	43	2.3	43	98	0	189	23	15	35	26	1.94
47055539--47055612	29	2.6	29	87	8	98	27	16	31	25	1.96
47055923--47056238	40	7.9	40	82	4	318	25	22	27	25	2.00
47055923--47056223	80	3.8	80	86	3	358	24	22	27	24	2.00
47059581--47059943	47	7.6	47	96	1	629	31	8	28	30	1.87
47060061--47060139	37	2.1	37	90	0	122	24	18	31	25	1.98
47061730--47061783	20	2.7	20	100	0	108	25	5	16	51	1.66
47062846--47062901	18	3.1	18	84	5	69	28	19	1	50	1.58
47066599--47066653	29	1.9	28	82	10	67	18	30	12	38	1.88
47071677--47071734	23	2.5	23	85	0	80	44	13	18	22	1.85
47080971--47081019	24	2.0	24	96	0	89	4	22	28	44	1.71
47083345--47083486	60	2.3	60	79	5	153	30	25	16	28	1.96
47104694--47104763	21	3.2	21	68	18	61	22	10	25	41	1.85
47107849--47108222	47	8.0	47	88	0	523	32	11	29	27	1.92
47108385--47108530	37	3.9	37	92	0	229	22	19	32	25	1.98
47109909--47110444	47	11.1	47	86	6	703	26	29	12	31	1.93
47110036--47110422	100	3.9	100	95	1	697	26	29	13	30	1.94
47109909--47110444	147	3.7	143	85	7	688	26	29	12	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47112628--47112806	85	2.1	85	98	0	349	26	27	8	37	1.85
47114255--47114363	57	1.9	58	88	1	166	28	28	19	23	1.98
47114575--47115166	40	14.8	40	90	0	887	25	28	21	23	1.99
47115046--47115118	23	3.4	23	62	21	59	23	30	24	21	1.99
47116701--47117134	47	9.1	47	89	4	625	26	30	12	30	1.93
47119314--47119492	85	2.1	85	98	0	349	26	27	8	37	1.85
47127554--47127641	45	2.0	45	86	0	122	25	10	22	42	1.85
47135820--47135884	27	2.4	27	100	0	130	38	20	21	20	1.94
47135885--47136057	27	6.4	27	89	0	265	24	20	19	35	1.96
47140284--47140513	40	5.8	40	88	3	313	24	23	26	26	2.00
47143858--47143927	27	2.6	26	95	2	95	31	28	12	27	1.93
47143858--47143955	28	3.5	28	90	2	135	31	28	13	26	1.94
47144402--47144428	12	2.2	12	100	0	54	40	0	7	51	1.30
47148001--47148052	27	2.0	26	84	3	68	34	21	26	17	1.95
47148704--47149037	27	12.4	27	86	1	436	25	20	17	35	1.95
47154335--47154486	56	2.7	56	86	0	196	30	26	14	28	1.95
47158181--47158300	46	2.6	47	81	10	138	27	22	15	35	1.94
47165536--47165649	48	2.4	48	80	8	126	30	18	14	35	1.91
47169215--47169305	41	2.2	42	90	2	139	34	16	23	26	1.95
47174548--47174869	47	6.6	47	84	10	394	33	8	28	29	1.86
47174560--47174727	59	3.0	60	82	16	236	34	7	26	31	1.84
47174607--47174631	12	2.1	12	100	0	50	44	0	16	40	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47183321--47183367	20	2.2	22	85	7	62	65	4	21	8	1.37
47185497--47185530	16	2.1	16	100	0	68	58	17	0	23	1.38
47189844--47189977	51	2.7	50	81	3	171	29	25	18	26	1.98
47195185--47195523	47	7.1	47	77	8	210	34	9	27	28	1.88
47195255--47195581	48	6.8	48	78	10	317	35	8	27	29	1.86
47195185--47195581	143	2.8	141	72	14	324	35	8	26	29	1.86
47195208--47195578	193	1.9	193	84	4	498	35	8	26	28	1.87
47195405--47195480	23	3.2	25	62	24	63	28	13	34	23	1.92
47195728--47195872	37	3.9	37	91	0	227	22	19	32	25	1.97
47205462--47205648	50	3.8	49	80	7	189	25	18	27	28	1.98
47211646--47211715	25	2.8	25	86	0	104	48	14	18	18	1.81
47211625--47211721	6	15.8	6	69	16	65	49	14	17	18	1.80
47211646--47211746	31	3.3	31	71	15	100	46	13	19	19	1.83
47211670--47211746	37	2.1	37	92	0	127	45	15	19	19	1.85
47211634--47211774	62	2.3	62	91	0	219	47	12	18	21	1.81
47211707--47211771	25	2.6	25	92	0	103	43	13	20	23	1.87
47211909--47211971	27	2.3	27	83	5	74	36	23	23	15	1.94
47212611--47212745	27	5.0	27	81	1	146	25	21	18	34	1.96
47212791--47212996	27	7.7	26	80	7	180	27	9	22	40	1.84
47212789--47212996	54	3.9	54	81	2	220	27	9	23	39	1.85
47212772--47212996	81	2.8	79	79	5	234	28	9	22	40	1.85
47223575--47223688	46	2.5	46	89	1	165	21	21	27	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47226652--47226731	15	5.4	14	75	7	61	11	18	12	57	1.64
47229117--47229245	46	2.8	46	93	0	213	20	20	28	30	1.98
47232192--47232260	15	4.6	15	79	0	75	13	17	11	57	1.64
47232183--47232270	30	3.0	30	78	8	90	11	17	14	56	1.66
47232192--47232271	15	5.4	14	77	4	61	11	17	12	58	1.62
47235103--47235180	39	2.0	38	97	2	147	24	20	34	20	1.96
47238428--47238529	6	16.8	6	77	13	102	48	12	17	21	1.81
47238428--47238529	30	3.4	30	87	1	150	48	12	17	21	1.81
47238647--47238712	27	2.5	26	85	7	87	37	22	22	16	1.93
47238671--47238728	27	2.1	27	81	6	64	36	25	20	17	1.94

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