genome.fa.s25.2.7.7.80.10.50.1000.104.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  104  of  214  ( 25680 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)
30840852--30840981	27	4.8	27	84	7	138	30	29	10	30	1.90
30849376--30849402	3	9.0	3	100	0	54	33	33	0	33	1.58
30853721--30853754	17	1.9	18	94	5	61	32	38	29	0	1.58
30873863--30874539	339	2.0	339	98	0	1318	36	14	18	29	1.91
30880023--30880129	25	4.3	25	84	2	108	35	19	21	23	1.96
30880189--30880279	45	2.0	45	89	0	137	26	23	18	31	1.97
30881012--30881626	316	1.9	316	97	0	1176	37	16	6	39	1.76
30884601--30884635	18	1.9	18	94	0	61	25	8	28	37	1.85
30887605--30887651	18	2.6	18	96	0	85	57	4	0	38	1.18
30894110--30894207	27	3.5	28	90	2	135	26	13	28	31	1.94
30894138--30894220	27	3.0	27	87	5	96	30	12	25	32	1.92
30894110--30894221	28	4.0	27	83	6	98	28	12	25	33	1.92
30899262--30899317	25	2.2	25	76	14	62	39	1	1	57	1.20
30905183--30905253	21	3.5	21	79	16	96	21	9	19	49	1.77
30905173--30905253	38	2.1	38	100	0	162	20	11	18	49	1.78
30905172--30905238	17	3.7	17	81	14	89	19	11	16	52	1.74
30909080--30909119	20	2.0	20	85	9	55	35	10	12	42	1.76
30915046--30915121	21	3.7	21	87	7	120	36	11	10	40	1.76
30915059--30915122	19	3.3	19	93	4	101	37	14	9	39	1.78
30934392--30934440	24	2.0	24	100	0	98	32	8	32	26	1.86
30934863--30934899	15	2.5	16	87	12	53	32	16	5	45	1.70
30939254--30939279	13	2.0	13	100	0	52	30	23	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30940881--30940918	13	3.0	13	92	3	60	10	55	34	0	1.34
30941153--30941185	14	2.4	14	94	0	57	24	57	3	15	1.52
30943425--30943491	19	3.7	18	73	13	66	11	5	4	77	1.09
30952811--30952855	17	2.6	17	78	21	58	55	6	2	35	1.38
30953079--30953138	30	2.0	31	83	9	79	41	1	36	20	1.62
30953352--30953388	9	4.1	9	92	0	65	29	10	13	45	1.77
30956325--30956464	42	3.3	42	81	5	147	30	27	17	25	1.97
30958685--30958721	15	2.7	13	84	15	56	40	0	0	59	0.97
30958688--30958719	15	2.1	15	100	0	64	40	0	0	59	0.97
30960715--30960812	48	2.0	48	92	0	160	35	8	25	30	1.85
30961394--30961527	54	2.5	54	90	2	198	27	31	24	16	1.96
30963969--30964014	21	2.3	20	79	13	51	6	32	2	58	1.36
30977171--30977433	39	6.7	40	87	6	328	24	27	22	25	2.00
30983323--30983398	28	2.8	28	80	13	95	35	5	7	51	1.54
30986241--30986354	41	2.8	41	91	2	185	23	20	22	33	1.97
30986806--30987069	97	2.7	97	95	1	474	31	10	15	42	1.81
30997558--30997649	34	2.7	35	79	5	107	19	22	22	34	1.96
30997499--30997735	75	3.2	75	72	11	238	24	22	21	32	1.98
31003080--31003112	17	1.9	17	88	11	50	0	18	12	69	1.18
31005031--31005278	50	4.9	50	79	5	232	23	27	20	28	1.99
31012565--31012595	11	2.8	11	100	0	62	74	9	16	0	1.07
31012715--31012867	37	4.1	37	97	0	288	34	22	12	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31015008--31015107	49	2.0	49	98	0	191	50	6	1	43	1.33
31018181--31018214	17	2.1	16	89	10	52	2	14	0	82	0.79
31019514--31019618	40	2.6	40	83	3	129	29	15	21	33	1.94
31019514--31019632	41	2.9	41	77	5	125	29	15	21	33	1.94
31025684--31025710	11	2.5	11	100	0	54	59	0	0	40	0.98
31026084--31026149	22	3.0	22	76	12	73	42	1	1	54	1.18
31027194--31027237	23	1.9	23	85	0	61	43	2	6	47	1.42
31030067--31030203	58	2.4	57	83	2	175	53	3	0	42	1.24
31031327--31031418	30	3.0	30	80	17	116	57	0	2	40	1.11
31031327--31031450	10	12.1	10	71	14	67	57	0	3	39	1.15
31031327--31031419	31	3.0	30	84	13	109	58	0	2	39	1.10
31031326--31031452	41	3.1	42	78	12	129	56	0	3	40	1.15
31039856--31039897	20	2.1	20	95	0	75	52	0	11	35	1.38
31040974--31041034	30	2.0	31	87	3	88	37	0	42	19	1.52
31041093--31041168	31	2.6	30	74	15	77	39	15	15	28	1.89
31048075--31048121	5	9.6	5	77	13	53	78	2	0	19	0.85
31048073--31048123	14	3.6	14	81	5	66	78	1	0	19	0.85
31057699--31057736	20	1.9	20	88	0	58	18	18	10	52	1.73
31075018--31075072	27	2.0	27	86	6	76	60	14	16	9	1.59
31079441--31079494	24	2.2	26	83	12	69	12	9	11	66	1.44
31080666--31080703	19	2.0	19	89	0	58	34	28	7	28	1.85
31081263--31081324	29	2.1	31	87	6	92	33	1	46	17	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31094244--31094417	88	2.0	88	98	0	339	35	5	16	42	1.72
31096454--31097002	276	2.0	277	85	0	749	34	21	12	31	1.90
31102916--31102952	18	2.2	18	85	9	51	5	24	0	70	1.08
31102911--31102965	28	2.0	28	85	0	74	10	27	0	61	1.29
31102984--31103042	21	2.7	21	76	7	64	8	25	0	66	1.20
31103078--31103140	30	2.0	31	85	11	85	12	19	1	66	1.32
31109664--31109731	35	2.0	36	82	8	88	51	13	10	25	1.72
31114155--31114253	48	2.1	48	94	0	171	31	22	17	29	1.96
31114609--31114736	22	5.9	22	73	0	87	29	23	16	30	1.96
31117039--31117103	34	1.9	34	90	0	103	56	3	3	36	1.30
31124626--31124664	3	13.0	3	100	0	78	0	33	0	66	0.92
31129638--31129706	36	1.9	36	96	0	129	42	17	5	34	1.73
31134815--31134846	12	2.8	12	95	4	57	62	0	6	31	1.20
31140288--31140778	47	10.4	47	94	0	829	32	8	29	29	1.88
31140897--31140975	37	2.1	37	88	4	115	25	18	30	25	1.98
31147997--31148078	27	3.0	27	77	7	83	62	4	8	24	1.44
31149845--31149908	31	2.1	31	91	5	103	70	0	26	3	1.02
31149852--31149904	16	3.5	15	78	12	63	67	0	30	1	1.01
31153215--31153275	28	2.1	29	81	6	70	55	8	1	34	1.39
31156479--31156503	9	2.8	9	100	0	50	80	0	0	20	0.72
31156702--31156781	40	2.0	40	92	0	133	40	11	16	32	1.84
31157318--31157387	36	2.0	35	85	2	95	24	20	10	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31157502--31157526	5	5.0	5	100	0	50	80	0	0	20	0.72
31157769--31157930	42	3.9	41	91	1	234	21	21	20	35	1.96
31157769--31157930	83	2.0	83	87	2	236	21	21	20	35	1.96
31158310--31158360	21	2.4	21	83	0	66	5	45	15	33	1.71
31160735--31161059	9	35.8	9	79	1	353	32	1	16	49	1.56
31160735--31161059	100	3.2	100	88	0	481	32	1	16	49	1.56
31161101--31161176	21	3.6	21	83	3	91	39	6	14	39	1.72
31161102--31161273	42	4.4	39	67	23	110	40	4	12	42	1.64
31161395--31161432	16	2.4	16	91	4	60	52	5	0	42	1.24
31161429--31161456	13	2.2	13	100	0	56	46	7	7	39	1.59
31161425--31161474	17	3.2	17	81	18	72	52	6	6	36	1.51
31189639--31189791	62	2.5	62	78	2	164	21	28	24	25	1.99
31197410--31197459	25	2.0	26	88	4	75	14	10	12	64	1.51
31202514--31202561	24	2.0	24	84	8	62	45	16	16	20	1.85
31205098--31205131	16	2.2	15	89	5	50	73	0	0	26	0.83
31207903--31207927	13	1.9	13	100	0	50	0	16	40	44	1.47
31216445--31216472	14	2.0	14	100	0	56	35	21	7	35	1.81
31218256--31218282	8	3.4	8	100	0	54	33	0	0	66	0.92
31226734--31226788	23	2.4	23	81	0	65	16	10	14	58	1.64
31231940--31231995	21	2.7	21	91	0	85	30	8	32	28	1.88
31234981--31235042	6	10.2	6	92	3	106	37	0	62	0	0.95
31234981--31235050	18	3.9	18	90	3	61	38	0	61	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31242675--31242721	21	2.2	22	88	3	69	23	19	36	21	1.95
31245884--31245930	21	2.2	22	88	3	69	23	19	36	21	1.95
31248651--31248685	2	17.5	2	93	0	61	0	45	0	54	0.99
31253878--31253916	20	2.0	20	94	0	69	43	15	12	28	1.83
31253880--31253928	20	2.5	20	86	6	64	40	20	14	24	1.89
31254916--31254963	24	2.0	24	100	0	96	45	8	20	25	1.79
31256236--31256383	20	7.6	20	73	5	97	40	17	7	34	1.78
31256222--31256401	57	3.1	58	82	5	195	40	17	7	34	1.78
31256277--31256383	20	5.5	19	77	7	99	41	16	7	34	1.77
31256510--31256539	15	2.0	15	100	0	60	26	0	20	53	1.46

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