genome.fa.s24.2.7.7.80.10.50.1000.125.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: D11
Parameters: 2 7 7 80 10 50 1000
Length:  73211361

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   

This is table  125  of  240  ( 28759 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)
38855462--38855608	34	4.3	33	68	16	77	40	18	2	38	1.62
38855091--38855550	236	2.0	232	91	2	751	45	11	1	41	1.50
38855213--38855511	56	5.1	56	66	20	173	45	12	1	41	1.48
38855551--38855601	16	3.1	16	88	5	75	43	21	1	33	1.64
38861028--38861173	65	2.2	66	85	4	197	40	17	28	14	1.88
38861145--38861256	21	5.3	21	79	0	98	34	16	41	7	1.75
38861564--38861752	43	4.4	43	81	2	191	23	15	31	28	1.96
38861564--38861941	86	4.4	86	73	6	259	24	20	28	26	1.99
38861570--38861792	43	5.2	42	79	2	167	23	17	31	28	1.96
38861797--38861897	43	2.4	42	81	1	112	29	29	20	19	1.97
38862054--38862097	21	2.1	21	86	0	61	38	25	20	15	1.92
38862331--38862397	34	2.0	34	82	5	82	46	29	1	22	1.61
38862346--38862383	20	1.9	20	88	0	58	47	34	2	15	1.60
38862572--38862604	13	2.4	14	85	5	50	51	27	0	21	1.48
38863154--38863700	114	4.8	113	72	7	419	26	20	23	29	1.99
38863073--38863840	228	3.4	226	84	5	904	25	19	24	31	1.98
38863485--38863915	217	2.0	217	81	4	503	24	19	23	32	1.97
38864761--38864802	20	2.2	19	83	12	50	21	0	14	64	1.29
38865323--38865398	40	1.9	38	86	5	107	32	22	19	25	1.97
38865456--38865642	41	4.6	41	87	1	250	21	21	27	29	1.98
38865967--38866022	15	3.8	15	80	2	60	19	1	42	35	1.62
38866216--38866296	21	3.8	21	69	11	58	27	1	32	39	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38866285--38866313	15	1.9	15	100	0	58	13	0	51	34	1.42
38866264--38866344	36	2.2	36	80	4	92	24	0	38	37	1.56
38868840--38868870	10	3.1	10	95	0	53	16	19	12	51	1.76
38870641--38870671	15	2.0	16	93	6	55	51	0	6	41	1.27
38870688--38870911	43	5.3	42	83	7	242	19	16	30	32	1.95
38870992--38871033	22	1.9	22	95	0	75	45	28	16	9	1.79
38871526--38871555	9	3.2	9	95	4	51	46	3	0	50	1.18
38873773--38873829	26	2.2	26	80	0	69	54	3	0	42	1.17
38882550--38882613	27	2.4	26	71	7	65	48	9	3	39	1.51
38882727--38882771	23	1.9	24	95	4	83	60	0	15	24	1.36
38882721--38882778	11	5.1	11	80	14	64	60	0	15	24	1.35
38882830--38882898	22	3.1	22	85	6	86	55	1	15	27	1.50
38882830--38882896	11	6.1	11	70	19	59	55	1	16	26	1.50
38882839--38882896	17	3.5	17	73	17	50	56	1	15	25	1.49
38883081--38883170	16	5.6	16	67	17	51	62	3	10	24	1.42
38883198--38883260	6	11.2	6	77	13	53	61	1	3	33	1.21
38883573--38883647	34	2.2	34	88	2	107	61	1	9	28	1.35
38883573--38883670	34	2.8	33	81	9	106	60	1	11	27	1.37
38883767--38883841	39	1.9	39	89	5	116	65	0	13	21	1.26
38883794--38883836	16	2.5	18	78	21	56	67	0	11	20	1.22
38883767--38883885	56	2.1	56	86	6	161	63	0	14	21	1.36
38883775--38883880	11	9.5	11	72	17	76	59	0	15	24	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38886409--38886642	90	2.6	90	80	7	260	57	12	6	23	1.59
38888919--38888996	17	4.5	17	78	15	72	52	0	23	24	1.47
38888922--38888999	23	3.4	21	77	16	75	53	0	21	24	1.46
38888927--38888999	29	2.5	29	75	16	71	54	0	21	23	1.45
38888919--38888999	6	14.2	5	79	18	63	53	0	22	24	1.47
38891473--38891519	14	3.4	14	73	5	51	57	6	0	36	1.24
38891466--38891519	27	2.0	27	96	0	99	55	9	0	35	1.32
38897258--38897306	20	2.7	18	77	22	57	51	4	2	42	1.32
38907885--38908239	188	1.9	183	90	2	557	42	21	8	27	1.82
38911374--38911404	14	2.2	14	94	0	53	16	6	16	61	1.54
38918772--38918821	14	3.6	14	81	2	57	38	24	8	30	1.84
38921169--38921215	18	2.6	18	83	10	51	25	2	0	72	0.96
38921227--38921260	16	2.1	16	89	10	52	41	5	0	52	1.25
38925621--38925648	6	4.7	6	100	0	56	32	0	0	67	0.91
38927234--38927266	13	2.5	13	95	0	57	45	9	33	12	1.73
38929827--38929864	20	1.9	20	94	0	67	31	26	10	31	1.90
38938950--38938990	11	3.7	11	80	0	55	19	14	9	56	1.66
38939027--38939088	30	2.1	30	90	0	97	29	1	9	59	1.38
38943520--38943583	20	3.2	21	86	4	71	23	28	15	32	1.95
38943517--38943583	30	2.2	30	80	12	75	22	26	14	35	1.93
38947124--38947158	16	2.2	16	89	0	52	57	5	0	37	1.23
38947302--38947356	4	13.8	4	77	11	51	0	25	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38947314--38947356	9	4.8	9	86	11	61	0	20	0	79	0.74
38949549--38949599	21	2.4	21	80	3	57	31	3	9	54	1.51
38951513--38951564	27	1.9	27	88	7	79	46	11	3	38	1.59
38958748--38958799	26	2.0	26	85	7	70	51	5	9	32	1.58
38971712--38971770	31	1.9	31	100	0	118	37	6	11	44	1.68
38992328--38992580	128	2.0	128	95	0	452	30	25	12	31	1.93
38993059--38993130	31	2.3	31	90	4	110	37	9	13	38	1.78
39001697--39002298	301	2.0	301	96	0	1105	33	15	15	35	1.89
39009420--39009467	23	2.1	23	92	0	78	29	4	8	58	1.46
39015345--39015493	42	3.5	42	77	9	151	27	18	24	28	1.98
39018910--39019207	123	2.5	120	84	3	386	29	16	7	46	1.74
39022178--39022260	26	3.2	26	67	21	66	33	12	21	32	1.90
39022178--39022348	51	3.4	50	78	4	182	32	12	23	30	1.92
39026050--39026092	9	4.7	9	82	2	50	34	18	13	32	1.90
39026050--39026092	18	2.3	18	92	4	68	34	18	13	32	1.90
39026472--39026496	5	5.0	5	100	0	50	20	0	0	80	0.72
39026960--39026984	7	3.6	7	100	0	50	56	0	0	44	0.99
39027128--39027289	82	2.0	82	95	0	288	18	16	20	44	1.87
39032236--39032288	25	2.1	25	92	0	88	26	11	37	24	1.89
39037516--39037573	24	2.4	24	85	2	71	18	22	17	41	1.90
39037533--39037661	25	5.2	24	71	12	75	18	24	21	35	1.95
39039798--39039989	50	3.8	50	83	0	213	25	20	30	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39044517--39044555	20	2.0	20	89	0	60	48	12	10	28	1.74
39044539--39044578	14	2.9	14	84	0	53	42	17	7	32	1.77
39050282--39050500	25	8.8	25	70	13	132	36	19	23	21	1.95
39058602--39058650	3	16.7	3	81	12	57	2	26	2	69	1.10
39058601--39058650	15	3.4	14	83	8	64	2	26	2	70	1.09
39064527--39064551	12	2.1	12	100	0	50	48	32	8	12	1.69
39066875--39066928	26	2.1	26	82	6	65	59	7	5	27	1.47
39067034--39067092	22	2.6	22	82	12	59	76	5	10	8	1.15
39077810--39077853	21	2.1	21	95	0	79	36	11	15	36	1.84
39090462--39090498	16	2.3	16	95	0	65	59	18	5	16	1.55
39090864--39090920	20	2.5	24	72	24	68	29	10	29	29	1.90
39096606--39096660	29	2.0	27	82	13	67	61	10	12	14	1.56
39098591--39098641	21	2.4	22	83	6	61	7	21	1	68	1.25
39098603--39098663	21	2.9	21	76	16	63	6	21	0	72	1.07
39103143--39103357	45	4.8	44	76	6	134	25	18	11	44	1.83
39104131--39104181	27	1.9	26	84	11	68	31	5	0	62	1.19
39110995--39111028	17	1.9	18	94	5	61	64	0	5	29	1.17
39110825--39111482	313	2.1	311	90	3	973	41	10	12	34	1.79
39111630--39111667	19	2.1	18	85	14	51	42	0	0	57	0.98
39113745--39113848	20	5.3	20	69	7	79	12	30	18	38	1.88
39113731--39113859	39	3.3	40	85	3	190	15	29	17	37	1.90
39114340--39114369	13	2.3	13	94	0	51	20	0	30	50	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39116133--39116201	22	3.0	22	71	8	66	36	17	10	36	1.84
39116133--39116214	22	3.6	22	72	6	65	36	18	10	34	1.86
39131472--39131508	7	5.3	7	96	0	56	21	0	0	78	0.75
39131454--39131505	15	3.5	15	79	12	54	26	1	0	71	0.97
39131466--39131508	7	6.1	7	91	0	50	20	2	0	76	0.89
39135604--39135676	23	3.2	22	78	5	76	13	17	24	43	1.86
39144459--39144511	27	2.0	27	100	0	106	45	11	16	26	1.82
39144787--39144961	57	3.1	55	84	4	215	44	5	20	29	1.74
39160169--39160259	24	3.8	24	65	17	62	58	0	1	40	1.05
39161353--39161482	66	2.0	66	92	0	215	33	10	6	50	1.62

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