genome.fa.s17.2.7.7.80.10.50.1000.101.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  101  of  185  ( 22116 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)
31857318--31857819	174	2.9	174	96	0	932	31	24	14	30	1.94
31857772--31857850	29	2.7	30	82	13	110	29	30	15	25	1.96
31865740--31865807	29	2.3	29	82	5	84	27	29	13	29	1.94
31865914--31865981	29	2.3	29	85	5	93	27	30	13	27	1.94
31866083--31866161	29	2.7	30	82	13	110	29	30	15	25	1.96
31865629--31866130	174	2.9	174	98	0	968	30	24	14	29	1.95
31867840--31867911	33	2.1	34	87	2	101	41	6	11	40	1.67
31871349--31871387	17	2.4	17	87	12	55	15	12	2	69	1.30
31875429--31875473	20	2.2	20	88	0	63	26	13	15	44	1.83
31916559--31916628	36	1.9	36	91	0	113	31	17	14	37	1.89
31916734--31916772	20	2.0	20	89	0	60	56	10	10	23	1.63
31926403--31926477	36	2.1	37	84	2	98	56	5	4	34	1.41
31937373--31937404	12	2.7	12	90	0	55	6	21	43	28	1.77
31943246--31943288	21	2.0	21	100	0	86	44	13	13	27	1.83
31947629--31947773	64	2.2	64	80	12	188	20	11	36	31	1.88
31951858--31951909	27	1.9	27	96	0	95	46	9	21	23	1.80
31952683--31952765	27	3.1	27	77	3	87	20	25	32	21	1.98
31954014--31954073	27	2.2	28	80	14	72	26	30	21	21	1.99
31954477--31954555	3	26.3	3	100	0	158	67	0	32	0	0.91
31963660--31964432	275	2.8	277	88	2	1158	27	20	16	36	1.94
31967897--31967936	20	2.0	20	85	0	53	42	20	7	30	1.79
31974919--31974987	22	3.3	22	70	8	63	53	5	0	40	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31984508--31984532	13	1.9	13	100	0	50	32	20	16	32	1.94
31985076--31985250	27	6.4	27	82	3	190	26	14	28	30	1.95
31985077--31985232	82	1.9	81	88	3	233	26	15	28	29	1.96
31985073--31985250	82	2.2	81	82	3	223	26	15	27	30	1.96
31996571--31996619	19	2.5	20	83	16	66	36	12	2	48	1.52
32006751--32006925	27	6.4	27	82	5	174	30	28	14	26	1.95
32006769--32006924	82	1.9	81	88	3	233	29	28	15	26	1.96
32007467--32007491	13	1.9	13	100	0	50	32	16	20	32	1.94
32013669--32013693	7	3.6	7	100	0	50	16	52	0	32	1.44
32019575--32019700	6	20.3	6	67	20	64	46	15	19	18	1.84
32019602--32019674	19	3.5	19	73	20	65	46	16	21	15	1.83
32019596--32019700	25	4.4	25	79	13	123	45	15	20	18	1.85
32019602--32019700	44	2.2	44	96	0	180	45	16	21	17	1.85
32019626--32019677	19	2.7	19	90	0	77	46	17	19	17	1.85
32019626--32019697	19	3.5	19	72	20	72	44	16	20	18	1.87
32019818--32019897	26	3.0	26	87	3	97	36	23	23	16	1.94
32020056--32020120	22	3.0	22	86	8	96	33	23	23	20	1.97
32020551--32021005	27	16.9	27	87	0	624	25	21	18	35	1.96
32020997--32021263	27	9.9	27	79	8	148	32	9	20	37	1.85
32020968--32021181	81	2.6	80	79	7	184	32	10	20	36	1.86
32021050--32021284	82	2.9	80	83	3	245	30	10	20	38	1.87
32021050--32021284	27	8.7	27	83	3	258	30	10	20	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32046128--32046269	40	3.6	40	92	4	227	25	27	23	23	2.00
32057814--32058079	47	5.6	47	91	3	383	33	7	29	29	1.86
32060654--32060859	40	5.2	40	92	0	315	29	27	20	22	1.99
32068608--32068828	40	5.6	40	93	4	337	27	28	21	23	1.99
32073264--32073320	21	2.7	20	81	5	60	28	1	31	38	1.67
32073284--32073338	28	2.0	28	85	7	76	27	1	32	38	1.67
32075566--32075610	14	3.5	14	77	22	62	44	13	4	37	1.64
32075559--32075609	24	2.1	24	96	0	93	45	9	3	41	1.56
32076430--32076472	21	2.1	21	82	4	52	41	4	9	44	1.57
32076487--32076533	23	2.0	23	95	0	85	42	2	12	42	1.55
32076490--32076549	23	2.6	22	82	12	68	48	1	10	40	1.47
32076841--32076935	49	2.0	48	93	2	163	42	13	1	43	1.51
32077274--32077568	9	33.6	9	75	11	209	47	14	1	36	1.51
32077270--32077428	44	3.6	44	93	0	264	48	13	1	36	1.51
32077284--32077530	35	6.6	35	73	16	156	48	12	1	37	1.50
32077336--32077568	35	6.6	35	74	14	153	47	14	0	36	1.50
32090656--32090714	11	4.8	12	73	17	50	30	0	1	67	1.00
32092115--32092153	17	2.3	17	95	0	69	35	12	25	25	1.92
32098556--32098849	50	5.9	50	86	0	381	22	29	21	26	1.99
32098556--32098897	150	2.2	153	84	4	440	23	28	21	26	1.99
32102463--32102493	11	2.8	11	95	0	53	32	45	0	22	1.53
32121806--32121832	4	6.8	4	100	0	54	77	0	22	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32124029--32124056	14	2.0	14	100	0	56	42	7	0	50	1.30
32125795--32125908	62	1.9	59	85	5	156	42	4	5	48	1.45
32127918--32127964	10	4.6	10	85	12	51	34	0	6	59	1.23
32135308--32135367	24	2.5	24	86	2	86	28	11	16	43	1.83
32136016--32136105	39	2.3	40	84	7	121	28	27	23	20	1.99
32138340--32138367	12	2.3	12	100	0	56	28	0	32	39	1.57
32143068--32143123	28	2.0	28	100	0	112	25	14	7	53	1.66
32143645--32143678	6	5.3	6	89	10	50	82	0	2	14	0.79
32147785--32147834	16	3.2	16	72	16	59	54	2	4	40	1.31
32147770--32147842	31	2.3	32	92	4	121	60	2	4	32	1.30
32147773--32147823	16	3.3	15	71	17	50	60	1	5	31	1.31
32147958--32147999	17	2.4	17	81	14	50	30	4	11	52	1.59
32149187--32149275	27	3.3	27	79	6	92	13	13	38	34	1.84
32151704--32151864	33	4.9	33	80	3	139	45	14	19	19	1.85
32151874--32151943	28	2.5	28	73	13	72	40	15	27	17	1.90
32159809--32159852	22	2.0	21	83	12	54	40	0	0	59	0.98
32172379--32172571	45	4.3	45	79	5	194	40	18	18	22	1.91
32172539--32172628	45	2.0	45	84	4	119	44	16	20	18	1.87
32172382--32172593	90	2.4	90	79	1	228	40	18	18	23	1.92
32173499--32173552	20	2.7	20	94	0	90	51	5	22	20	1.67
32175049--32175091	13	3.5	13	75	18	56	46	16	2	34	1.60
32175047--32175093	23	2.0	23	95	0	85	44	17	2	36	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32175051--32175100	23	2.2	23	88	0	73	50	14	2	34	1.54
32213294--32213332	16	2.4	16	95	0	69	58	2	0	38	1.12
32213587--32213754	52	3.1	55	83	5	218	39	11	15	33	1.83
32214586--32214629	21	2.1	21	84	16	56	0	34	0	65	0.93
32214586--32214631	8	5.9	8	81	18	53	0	34	0	65	0.93
32214714--32214762	20	2.5	20	90	6	73	34	16	38	10	1.82
32215434--32215644	43	4.9	43	79	6	212	23	29	17	29	1.97
32215434--32215644	88	2.4	87	84	4	275	23	29	17	29	1.97
32215993--32216063	21	3.4	21	92	0	115	4	49	14	32	1.62
32217711--32218528	44	18.7	44	94	1	1432	32	1	15	50	1.55
32217711--32218528	174	4.7	176	96	1	1432	32	1	15	50	1.55
32218124--32218367	16	16.9	15	63	24	62	30	2	15	52	1.54
32217713--32218524	218	3.7	218	95	0	1439	32	1	15	50	1.55
32218508--32218555	20	2.7	17	84	12	53	27	0	20	52	1.47
32218540--32218713	9	19.1	9	65	20	51	34	1	17	46	1.58
32218509--32218580	25	3.1	24	82	9	71	30	0	22	47	1.52
32218529--32218613	41	2.1	41	84	0	107	34	2	20	43	1.64
32218627--32218677	20	2.8	18	77	11	59	29	0	17	52	1.45
32219665--32219982	146	2.2	147	83	2	388	38	21	13	26	1.90
32219665--32220074	147	2.8	147	79	3	362	38	22	13	25	1.91
32221287--32221718	71	5.8	72	78	12	442	25	21	18	34	1.96
32221364--32221541	90	2.0	90	97	0	338	23	24	19	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32221673--32221772	51	1.9	52	93	2	175	28	19	14	39	1.90
32221605--32221841	123	1.9	122	86	2	332	25	20	18	35	1.95
32221724--32221946	73	3.1	73	82	0	277	26	21	18	34	1.96
32222744--32222809	20	3.3	19	89	8	96	30	0	4	65	1.13
32228160--32228190	8	3.9	8	100	0	62	38	9	12	38	1.77
32229273--32229329	25	2.3	25	93	0	96	22	5	7	64	1.38
32235404--32235428	12	2.1	12	100	0	50	36	24	16	24	1.94
32241728--32241782	28	2.0	28	100	0	110	38	21	3	36	1.71
32242460--32242642	50	3.7	50	88	0	258	22	28	20	27	1.99
32242623--32242661	19	2.1	19	95	0	69	28	30	12	28	1.93

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