genome.fa.s4.2.7.7.80.10.50.1000.194.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  194  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)
64670326--64670376	26	2.0	26	88	0	75	45	15	17	21	1.86
64674555--64674654	44	2.3	43	82	5	121	33	24	15	28	1.95
64681261--64681320	29	2.1	29	84	6	77	50	11	6	31	1.65
64682619--64682647	14	2.0	15	93	6	51	20	20	27	31	1.98
64683660--64683742	41	2.0	41	90	0	130	40	12	14	32	1.83
64690177--64690349	46	3.8	45	75	13	181	21	19	28	29	1.98
64690172--64690342	93	1.8	93	92	0	288	21	20	28	29	1.98
64692937--64692996	23	2.7	22	87	5	93	31	16	23	28	1.96
64696974--64697012	18	2.1	18	85	4	51	58	5	28	7	1.47
64707361--64707508	74	2.0	74	98	0	287	39	18	14	27	1.90
64744342--64744380	20	2.1	19	85	9	53	51	12	28	7	1.67
64752762--64752933	93	1.8	93	95	2	310	28	29	20	20	1.98
64752755--64752930	46	3.8	46	79	14	209	29	29	20	20	1.98
64757664--64757688	4	6.2	4	100	0	50	0	0	24	76	0.80
64767890--64767927	4	10.0	4	88	5	53	71	0	0	28	0.87
64768348--64768393	23	2.0	23	100	0	92	17	17	21	43	1.88
64771853--64771936	31	2.7	31	96	1	152	27	27	17	27	1.98
64771960--64772051	42	2.2	42	96	0	166	31	20	15	32	1.94
64772199--64772268	25	2.8	25	91	4	106	27	24	24	24	2.00
64773196--64773293	27	3.6	27	82	10	117	35	9	15	39	1.79
64773284--64773469	27	6.9	27	82	3	223	29	11	20	38	1.88
64773468--64773559	27	3.4	27	82	5	123	41	7	22	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64775898--64776002	42	2.5	42	87	0	147	32	22	13	31	1.93
64781271--64781559	40	7.2	40	88	3	359	25	22	26	25	2.00
64783596--64783638	21	2.1	20	82	4	50	6	25	11	55	1.60
64785594--64785624	7	4.6	7	96	4	55	74	0	0	25	0.82
64797704--64797745	17	2.5	17	88	0	66	50	16	9	23	1.75
64801565--64801696	47	2.8	47	81	4	167	24	17	25	32	1.97
64803606--64803655	24	2.0	26	88	11	77	52	10	4	34	1.54
64809819--64809951	57	2.3	56	81	7	144	43	15	11	29	1.82
64811574--64811726	64	2.3	67	79	8	177	33	16	27	22	1.95
64814471--64814561	45	2.0	45	100	0	182	51	15	10	21	1.74
64814488--64814562	24	3.2	24	62	24	61	52	13	12	22	1.73
64822686--64822918	117	2.0	120	89	2	364	49	4	2	43	1.36
64822820--64822905	31	2.6	33	80	14	88	46	4	3	45	1.41
64822892--64822932	15	2.5	17	80	11	59	65	0	0	34	0.93
64826066--64826119	27	2.0	27	100	0	108	44	25	18	11	1.83
64829447--64829564	46	2.5	46	82	5	139	30	15	28	25	1.96
64830702--64830765	28	2.3	28	88	0	101	20	18	43	17	1.88
64832369--64832420	25	2.1	25	96	0	95	48	21	19	11	1.80
64833644--64833678	13	2.7	13	83	16	54	37	8	8	45	1.65
64835115--64835164	22	2.3	21	83	10	57	62	2	2	34	1.18
64838791--64838846	29	1.9	29	100	0	112	33	19	17	28	1.95
64840188--64840248	31	2.0	31	100	0	122	42	16	4	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64840829--64840858	11	2.7	11	94	0	51	20	6	33	40	1.78
64843923--64843957	17	2.0	17	88	5	52	20	31	37	11	1.88
64843975--64844091	55	2.1	55	80	3	137	20	21	32	25	1.97
64845347--64845436	45	2.0	45	95	0	162	22	24	22	31	1.99
64846814--64846861	21	2.4	19	78	18	53	2	20	6	70	1.19
64846899--64846967	5	14.2	5	90	6	97	57	4	0	37	1.18
64853783--64853819	16	2.3	16	90	0	56	56	0	0	43	0.99
64855149--64855207	29	2.0	29	100	0	118	20	20	35	23	1.96
64860576--64860625	26	2.0	25	88	7	75	54	0	0	46	1.00
64860580--64860640	26	2.4	26	83	8	72	47	1	1	49	1.21
64867159--64867211	23	2.4	22	76	20	56	9	18	1	69	1.25
64872176--64872227	24	2.2	24	89	0	77	55	9	1	32	1.43
64873344--64873422	37	2.1	38	95	2	142	27	31	0	40	1.57
64875977--64876046	31	2.3	31	80	7	79	47	14	22	15	1.82
64877039--64877341	41	7.4	41	91	1	448	34	22	22	20	1.97
64877039--64877341	124	2.5	122	89	2	446	34	22	22	20	1.97
64877039--64877341	83	3.7	82	90	2	448	34	22	22	20	1.97
64877642--64877695	15	3.7	15	76	16	51	22	1	35	40	1.65
64877643--64877697	21	2.6	21	80	8	58	23	1	36	38	1.66
64877831--64877869	14	2.8	14	84	0	51	25	0	25	48	1.51
64878316--64878360	19	2.3	19	80	3	54	73	6	2	17	1.15
64883867--64884028	43	3.8	43	81	4	184	25	18	29	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64883867--64884049	43	4.3	42	80	7	181	25	19	28	26	1.98
64883867--64884049	85	2.1	85	81	5	208	25	19	28	26	1.98
64892214--64892253	20	2.0	20	100	0	80	55	25	0	20	1.44
64905712--64905741	11	2.6	11	94	5	51	56	0	0	43	0.99
64906177--64906255	14	5.4	14	70	16	52	55	1	2	40	1.21
64906231--64906279	16	3.2	16	69	19	50	51	0	0	48	1.00
64915853--64915930	39	2.0	39	94	0	138	42	8	14	34	1.77
64916123--64916180	17	3.6	16	73	13	57	56	0	5	37	1.21
64917416--64917451	16	2.2	17	95	5	65	47	11	8	33	1.69
64919088--64919141	26	2.1	26	93	6	92	12	20	22	44	1.85
64926086--64926261	56	3.1	56	99	0	343	44	9	23	22	1.81
64927299--64927523	40	5.7	40	85	5	278	24	21	27	25	1.99
64927355--64927556	80	2.5	79	85	4	248	26	20	27	25	1.99
64927299--64927556	119	2.2	119	80	6	274	25	21	27	25	1.99
64939492--64939589	48	2.1	47	96	1	178	61	14	12	12	1.58
64942239--64942276	18	2.1	18	100	0	76	21	36	21	21	1.95
64947655--64947774	60	2.0	60	100	0	240	31	11	10	46	1.73
64948070--64948108	13	3.0	13	92	0	60	20	25	33	20	1.97
64954065--64954099	13	2.8	12	87	12	52	14	2	2	80	0.95
64954472--64954511	20	2.0	20	100	0	80	25	20	15	40	1.90
64960026--64960113	40	2.3	38	82	7	106	34	32	13	19	1.91
64962205--64962466	39	6.6	39	87	6	320	24	27	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64962205--64962463	118	2.2	119	83	10	327	24	27	21	25	1.99
64970234--64970495	39	6.7	40	87	7	319	24	27	22	25	2.00
64978450--64978537	40	2.2	40	84	4	117	34	34	13	18	1.90
64980365--64980397	8	4.1	8	96	0	57	27	21	0	51	1.48
64981264--64981483	49	4.6	48	72	11	173	23	31	17	27	1.97
64991855--64992305	129	3.5	129	87	2	622	36	20	16	26	1.93
64994971--64995706	176	4.2	176	86	4	916	22	23	20	33	1.98
64995806--64995996	64	3.0	63	92	3	301	36	13	17	32	1.88
64998213--64998397	90	2.1	91	95	2	338	15	26	13	44	1.83
65001458--65001907	128	3.5	128	90	0	659	34	20	18	26	1.95
65007889--65008039	28	5.4	28	92	1	223	33	28	11	25	1.92
65017642--65017691	24	2.1	24	85	7	66	14	0	34	52	1.42
65017810--65018117	126	2.4	125	91	2	485	38	17	18	25	1.92
65021159--65021240	39	2.1	39	82	6	96	46	7	7	39	1.60
65021297--65021328	15	2.1	15	94	0	55	65	6	0	28	1.16
65021194--65021570	132	2.9	129	90	5	575	55	4	4	35	1.39
65021674--65021726	21	2.5	22	78	12	65	7	20	45	26	1.78
65022088--65022135	13	3.4	13	74	20	51	8	16	45	29	1.76
65023820--65023870	11	4.7	10	83	9	57	39	0	31	29	1.57
65023820--65023870	21	2.3	21	80	16	59	39	0	31	29	1.57
65025018--65025110	26	3.6	26	80	8	100	23	12	26	36	1.91
65025001--65025135	51	2.6	52	85	3	175	26	14	24	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65025022--65025135	52	2.2	51	85	1	147	26	14	24	35	1.93
65026722--65026761	19	2.1	19	85	0	53	42	12	10	35	1.76
65028195--65028220	9	2.9	9	100	0	52	23	19	11	46	1.82
65035659--65035720	30	2.1	30	96	0	115	25	14	27	32	1.95
65043294--65043478	40	4.6	39	83	6	212	24	22	27	25	2.00
65043294--65043478	79	2.3	81	84	7	236	24	22	27	25	2.00
65043295--65043511	79	2.7	78	80	11	210	25	21	27	25	2.00
65050040--65050224	40	4.7	40	82	7	209	24	22	28	25	1.99
65050040--65050224	79	2.3	81	83	7	227	24	22	28	25	1.99
65050095--65050247	79	1.9	79	84	7	204	26	20	27	26	1.99

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