genome.fa.s25.2.7.7.80.10.50.1000.38.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  38  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)
10450324--10450482	29	5.6	28	84	8	207	23	0	32	44	1.58
10450325--10450481	54	2.8	56	86	7	194	22	0	31	44	1.58
10450364--10450421	23	2.4	24	85	5	73	17	0	36	46	1.48
10450984--10451024	18	2.3	18	86	0	64	41	4	31	21	1.74
10451678--10451703	7	3.7	7	100	0	52	57	15	0	26	1.38
10452881--10452950	22	3.2	22	97	0	131	44	0	30	25	1.55
10452842--10453028	95	2.0	96	92	1	313	43	1	28	26	1.62
10452973--10453028	22	2.5	22	85	2	76	39	1	32	26	1.67
10453013--10453045	10	3.0	11	86	13	50	45	0	36	18	1.49
10457147--10457187	21	2.0	21	85	0	55	41	12	7	39	1.70
10459217--10459257	17	2.4	17	91	4	64	21	19	0	58	1.39
10465422--10465453	5	6.6	5	92	7	57	62	0	0	37	0.95
10473296--10473337	20	2.0	23	86	13	63	45	2	0	52	1.13
10476423--10476499	28	2.7	27	80	7	82	58	0	2	38	1.12
10476488--10476540	9	5.8	9	95	2	88	58	0	1	39	1.09
10476486--10476550	18	3.5	18	85	4	67	60	0	4	35	1.18
10476474--10476550	27	2.8	27	75	18	86	59	0	3	36	1.16
10476859--10476957	27	3.6	27	71	15	78	29	3	5	62	1.31
10480721--10480785	31	2.1	31	94	2	114	29	0	0	70	0.87
10487705--10487808	52	2.0	52	84	0	136	28	25	12	32	1.92
10492333--10492418	11	7.6	11	73	18	61	5	17	2	74	1.12
10492331--10492407	6	13.2	6	70	10	52	5	18	2	74	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10501676--10501748	25	2.7	27	77	8	69	63	5	1	30	1.26
10507621--10507660	20	2.0	20	85	0	53	25	10	15	50	1.74
10507663--10507737	33	2.3	33	84	6	91	28	8	16	48	1.74
10508186--10508407	111	2.0	111	99	0	435	39	14	11	33	1.83
10511963--10512007	22	2.0	22	91	0	72	33	2	15	48	1.57
10515738--10515782	22	2.0	22	91	0	72	33	2	15	48	1.57
10517066--10517115	26	1.9	26	84	8	66	56	20	14	10	1.66
10517572--10517640	16	4.2	16	92	3	120	24	1	37	36	1.65
10517572--10517640	33	2.1	32	94	2	120	24	1	37	36	1.65
10517621--10517711	45	2.0	45	85	2	121	27	6	28	37	1.82
10517876--10517910	18	2.0	17	88	5	52	54	0	0	45	0.99
10522345--10522514	90	1.9	91	98	1	333	31	10	22	35	1.88
10523935--10524136	41	4.9	41	84	1	253	29	28	19	22	1.98
10523901--10524136	82	2.9	81	84	1	301	29	27	19	23	1.98
10524200--10524304	40	2.6	39	82	7	113	20	22	20	36	1.95
10524229--10524305	40	1.9	40	89	0	118	20	22	22	35	1.96
10526878--10526951	6	13.6	5	84	10	69	18	22	1	56	1.49
10526878--10526951	12	6.7	11	79	15	82	18	22	1	56	1.49
10526881--10526951	28	2.6	29	80	6	85	19	23	1	54	1.52
10526943--10526992	20	2.5	20	81	12	59	26	10	0	64	1.25
10526946--10526992	21	2.3	19	82	13	58	25	10	0	63	1.26
10526974--10527014	15	2.7	15	85	14	50	17	12	2	68	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10527060--10527111	19	2.7	19	90	0	77	34	15	1	48	1.56
10527095--10527179	23	3.5	23	76	14	98	31	15	0	52	1.43
10527169--10527207	19	2.1	18	85	4	51	23	7	0	69	1.14
10527603--10527705	22	4.9	21	79	12	106	21	16	0	61	1.40
10527603--10527688	41	2.1	41	86	4	120	20	16	1	61	1.40
10527599--10527925	5	61.6	5	69	20	118	25	14	0	58	1.43
10527670--10527806	41	3.2	40	70	16	98	22	11	1	64	1.35
10527599--10527716	27	4.4	26	68	19	73	22	14	0	61	1.38
10527834--10527925	28	3.3	28	90	6	159	30	16	0	53	1.43
10527866--10527926	23	2.6	24	82	12	74	32	16	0	50	1.45
10528000--10528039	15	2.7	15	92	0	62	22	15	0	62	1.32
10528016--10528064	22	2.3	21	83	13	57	26	14	2	57	1.48
10526903--10528480	750	2.1	723	85	9	2098	26	15	5	51	1.66
10528089--10528131	21	2.0	21	82	8	52	32	6	0	60	1.23
10528326--10528435	5	20.6	5	88	7	123	17	22	0	59	1.43
10528326--10528435	22	5.1	21	84	11	136	17	22	0	59	1.43
10528430--10528475	20	2.3	21	85	11	69	26	10	0	63	1.27
10528451--10528541	26	3.3	26	70	14	76	26	13	0	60	1.33
10528450--10528556	56	1.9	56	88	3	162	24	16	0	58	1.38
10531610--10531975	169	2.2	164	83	7	445	32	22	16	28	1.96
10534716--10534740	6	4.2	6	100	0	50	20	0	0	80	0.72
10538790--10538986	98	2.0	98	90	0	313	37	22	9	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10541097--10541290	84	2.3	85	80	2	228	30	21	19	27	1.98
10541009--10541426	44	9.6	45	67	16	148	27	22	21	28	1.99
10541505--10541626	45	2.7	46	81	9	144	25	27	20	27	1.99
10542819--10542881	31	2.0	31	90	0	99	30	12	20	36	1.90
10544852--10544910	17	3.2	17	74	21	64	44	27	15	13	1.84
10558544--10558740	98	2.0	98	93	0	340	37	24	10	28	1.88
10563267--10563293	14	1.9	14	100	0	54	37	11	14	37	1.82
10564364--10564424	19	3.1	20	81	13	65	50	1	0	47	1.10
10564371--10564424	19	2.6	21	80	19	69	51	1	0	46	1.11
10564688--10564721	17	1.9	18	94	5	61	44	11	11	32	1.77
10569220--10569283	27	2.4	27	81	0	65	26	32	29	10	1.90
10570033--10570058	13	2.0	13	100	0	52	46	0	7	46	1.31
10570547--10570972	159	2.7	158	92	2	712	54	9	8	27	1.61
10570987--10571242	128	2.0	132	86	3	367	25	8	9	56	1.59
10587942--10588050	33	3.4	30	76	18	103	54	5	0	40	1.24
10587944--10588046	10	10.8	10	74	19	60	53	4	0	41	1.22
10587973--10588046	10	7.8	10	78	17	77	55	2	0	41	1.14
10587942--10588026	27	3.0	28	84	6	84	55	5	0	38	1.24
10587973--10588064	47	2.0	46	95	2	166	57	3	0	39	1.15
10587943--10588043	30	3.6	27	74	12	87	53	4	0	41	1.22
10591419--10591447	14	2.0	15	93	6	51	82	0	10	6	0.83
10592229--10592309	29	2.8	29	76	0	81	19	23	16	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10593608--10593744	43	3.0	46	70	22	126	26	18	28	27	1.98
10597627--10597670	22	2.0	23	90	4	72	68	9	0	22	1.18
10603584--10603661	42	1.9	40	82	7	95	21	30	28	19	1.97
10604882--10604927	22	2.0	23	87	4	67	76	0	6	17	1.00
10604855--10604924	30	2.3	30	97	0	131	75	0	5	18	0.99
10605089--10605129	12	3.4	12	83	12	57	53	0	9	36	1.34
10605544--10605573	8	3.8	8	95	0	51	90	0	3	6	0.56
10612088--10612144	26	2.2	26	78	3	62	64	0	10	24	1.24
10613970--10614013	17	2.6	16	82	7	52	63	0	2	34	1.07
10615089--10615144	23	2.5	23	85	5	71	30	5	3	60	1.36
10620751--10620815	6	10.2	6	73	18	51	72	0	6	21	1.06
10628745--10628797	22	2.5	22	84	3	63	60	5	5	28	1.42
10631785--10631888	30	3.4	30	69	13	86	39	1	21	37	1.64
10633057--10633096	9	4.7	9	90	9	66	75	7	0	17	1.03
10633055--10633097	16	2.3	20	77	22	58	76	6	0	16	0.99
10634893--10634919	3	9.0	3	100	0	54	66	0	33	0	0.92
10637863--10637914	5	10.2	5	82	12	61	36	15	25	23	1.93
10637863--10637914	26	2.0	26	85	7	70	36	15	25	23	1.93
10646383--10646428	18	2.6	17	86	10	65	15	2	30	52	1.55
10649025--10649073	24	2.0	24	100	0	98	28	12	24	34	1.91
10652055--10652092	16	2.4	16	86	0	58	2	21	2	73	1.07
10659731--10659798	28	2.5	27	76	11	66	25	27	14	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10659786--10659886	27	3.7	27	81	1	112	32	22	10	33	1.89
10661572--10661715	41	3.5	41	91	0	216	31	23	18	26	1.98
10673891--10673936	3	15.0	3	82	13	58	32	2	0	65	1.05
10673891--10673935	15	3.0	15	84	9	65	33	2	0	64	1.06
10673964--10674045	22	3.6	23	77	6	87	32	7	6	53	1.53
10677291--10677315	13	1.9	13	100	0	50	12	24	24	40	1.88
10677250--10677356	54	2.0	54	88	0	160	16	23	20	39	1.92
10677304--10677392	41	2.1	41	83	10	108	19	21	20	39	1.93
10687088--10687119	6	5.5	6	96	3	57	87	0	12	0	0.54
10688840--10688936	47	2.1	47	98	0	185	38	9	9	43	1.69

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