genome.fa.s24.2.7.7.80.10.50.1000.9.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  9  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)
3448729--3448828	52	1.9	52	93	4	175	16	23	29	32	1.95
3448781--3448899	40	2.9	41	81	2	150	18	21	26	33	1.96
3449848--3449921	7	10.4	7	72	8	51	21	0	29	48	1.50
3449888--3449927	21	1.9	21	89	0	62	20	0	35	45	1.51
3449909--3449956	15	3.3	15	76	5	53	25	0	35	39	1.56
3451066--3451110	13	3.4	13	84	6	54	31	17	26	24	1.97
3454015--3454220	43	4.9	42	86	3	261	18	17	33	29	1.95
3455880--3455910	15	2.1	15	93	0	53	48	29	0	22	1.51
3456786--3456822	8	4.4	8	90	10	56	27	2	0	70	1.01
3456786--3456822	17	2.2	17	90	9	58	27	2	0	70	1.01
3458026--3458073	17	2.9	16	81	12	53	75	2	4	18	1.07
3458026--3458072	16	2.9	16	84	9	60	74	2	4	19	1.09
3464141--3464202	32	2.0	32	87	3	90	38	14	16	30	1.88
3474908--3474934	5	5.4	5	100	0	54	0	0	55	44	0.99
3485156--3485193	19	2.0	19	85	10	51	7	0	26	65	1.19
3486356--3486394	8	4.6	8	87	6	51	25	0	2	71	0.98
3493214--3493238	2	12.5	2	100	0	50	0	48	0	52	1.00
3502012--3502045	17	1.9	18	94	5	61	64	0	0	35	0.94
3502555--3502604	25	2.0	24	84	3	64	62	4	2	32	1.25
3504118--3504142	3	8.3	3	100	0	50	32	36	32	0	1.58
3508101--3508150	17	2.7	20	78	18	70	10	0	44	46	1.37
3512740--3512789	17	2.7	20	78	18	70	10	0	44	46	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3541163--3541243	40	2.0	40	92	0	135	38	11	14	35	1.82
3541402--3541457	29	1.9	29	96	0	103	35	0	7	57	1.26
3542546--3542620	16	4.6	16	80	5	78	29	36	18	16	1.92
3542546--3542673	65	2.0	65	83	6	161	29	30	17	21	1.97
3542560--3542673	32	3.5	31	72	5	93	28	28	18	23	1.98
3542697--3542765	30	2.3	30	87	0	93	28	18	23	28	1.98
3542718--3542766	15	3.3	15	72	11	55	28	22	20	28	1.98
3542719--3542776	30	1.9	30	92	0	98	29	22	18	29	1.98
3545298--3545361	17	3.6	17	72	6	56	65	1	1	31	1.11
3545326--3545402	30	2.6	30	78	13	88	66	1	5	27	1.21
3546041--3546081	14	3.2	13	80	12	50	80	0	17	2	0.82
3572124--3572191	35	1.9	34	82	5	82	48	4	2	44	1.38
3572615--3572682	22	3.1	21	83	8	82	32	27	0	39	1.57
3572654--3572712	30	2.0	30	93	0	100	30	35	0	33	1.58
3572632--3572734	52	2.0	51	85	9	138	32	33	0	34	1.58
3572684--3572725	22	1.9	22	90	0	66	33	33	0	33	1.58
3572767--3572823	30	1.9	30	89	10	91	38	0	1	59	1.08
3572922--3572977	24	2.3	23	77	19	60	28	0	5	66	1.14
3575095--3575169	23	3.2	24	83	5	91	46	25	0	28	1.53
3575123--3575408	32	9.8	29	75	19	251	48	24	0	26	1.51
3575117--3575410	56	5.1	56	80	11	376	48	23	0	27	1.51
3575139--3575377	61	3.9	62	83	9	323	48	23	0	28	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3575218--3575286	23	3.0	23	89	2	102	47	27	0	24	1.52
3575335--3575403	23	3.0	23	89	2	102	47	27	0	24	1.52
3575105--3575410	117	2.6	117	98	1	596	48	24	0	27	1.52
3576410--3576652	125	1.9	125	88	3	364	31	23	14	29	1.95
3576413--3576691	125	2.2	125	84	4	357	33	23	13	29	1.94
3585599--3585644	19	2.4	20	78	10	51	21	10	36	30	1.88
3592135--3592195	21	3.2	21	60	26	53	29	8	22	39	1.83
3592127--3592196	36	1.9	36	100	0	140	31	8	21	38	1.83
3595191--3595713	173	3.0	174	97	0	976	38	13	19	28	1.90
3603263--3603305	16	2.8	15	77	19	52	60	6	6	25	1.48
3603263--3603299	15	2.4	17	82	17	53	59	8	5	27	1.48
3604832--3604859	6	4.7	6	100	0	56	17	0	0	82	0.68
3604848--3604953	42	2.5	40	74	15	106	33	5	2	57	1.37
3605365--3605398	16	2.1	16	88	0	50	50	14	17	17	1.79
3608199--3608239	21	2.0	21	95	0	73	31	21	26	19	1.97
3610145--3610178	16	2.1	16	88	0	50	50	14	17	17	1.79
3611281--3611329	21	2.2	21	82	10	53	26	0	14	59	1.36
3613282--3613310	13	2.2	13	100	0	58	41	0	0	58	0.98
3614293--3614344	24	2.3	22	80	6	59	67	3	13	15	1.37
3615592--3615668	31	2.5	31	82	4	102	42	6	11	38	1.67
3616840--3616891	25	2.1	25	100	0	104	23	11	15	50	1.76
3618157--3618202	19	2.3	20	78	17	51	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3620415--3620441	4	6.8	4	100	0	54	51	22	0	25	1.48
3628508--3628567	31	1.9	31	90	6	95	36	8	6	48	1.60
3628507--3628574	31	2.2	30	85	12	93	35	7	8	48	1.62
3628820--3628889	31	2.3	31	79	0	77	45	10	7	37	1.65
3630680--3630714	17	2.1	16	89	5	52	57	2	0	40	1.14
3634659--3634790	68	1.9	68	93	0	228	46	9	5	38	1.60
3634782--3634834	9	6.1	9	82	8	65	52	13	0	33	1.40
3634781--3634837	25	2.3	25	87	0	78	52	12	0	35	1.39
3634907--3634948	16	2.6	16	92	0	66	42	4	2	50	1.36
3634922--3634977	23	2.5	23	82	2	69	44	1	1	51	1.22
3636720--3636823	29	3.7	29	65	14	90	37	12	13	36	1.83
3644711--3644779	31	2.2	31	81	0	84	46	10	8	34	1.69
3658950--3659127	59	3.0	59	100	0	356	34	15	23	26	1.94
3663826--3663876	19	2.6	20	78	6	59	29	1	7	60	1.36
3663864--3663900	12	3.0	12	88	4	56	13	2	10	72	1.21
3664499--3664546	20	2.4	20	78	0	60	20	45	0	33	1.52
3669094--3669315	112	2.0	111	93	0	381	50	11	13	24	1.74
3692117--3692385	52	5.2	52	88	6	388	35	14	22	27	1.93
3692111--3692385	98	2.7	98	90	3	415	34	14	22	28	1.93
3692349--3692494	37	4.0	37	93	1	251	36	16	22	24	1.94
3696306--3696382	38	2.0	38	89	0	118	27	16	14	41	1.87
3712846--3712993	43	3.4	43	89	4	226	31	23	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3713111--3713379	31	8.7	31	86	1	362	42	17	9	31	1.80
3714083--3714120	18	2.1	19	85	5	51	28	7	2	60	1.38
3718410--3718456	23	2.0	23	88	8	69	34	0	2	63	1.06
3718318--3718478	54	3.0	52	75	13	157	37	1	3	57	1.24
3721713--3721909	97	2.0	97	100	0	394	33	25	13	27	1.93
3726395--3726482	44	2.0	44	93	2	151	44	13	7	34	1.73
3732873--3732906	9	3.7	9	84	7	50	61	0	0	38	0.96
3732882--3732928	25	1.9	24	83	12	60	68	2	0	29	1.02
3734947--3734984	20	2.0	20	89	5	60	36	0	5	57	1.21
3735428--3735499	5	14.8	5	74	21	64	38	1	4	55	1.28
3735457--3735499	19	2.3	19	92	8	70	41	2	0	55	1.12
3735509--3735542	17	2.0	17	94	0	59	79	0	17	2	0.86
3735509--3735542	9	3.9	9	84	7	52	79	0	17	2	0.86
3736472--3736586	44	2.6	44	85	2	149	35	13	22	27	1.92
3736472--3736605	46	3.0	45	82	4	153	35	14	23	26	1.93
3741635--3741706	5	14.8	5	74	21	64	38	1	4	55	1.28
3741664--3741706	19	2.3	19	92	8	70	41	2	0	55	1.12
3741716--3741749	17	2.0	17	94	0	59	79	0	17	2	0.86
3741716--3741749	9	3.9	9	84	7	52	79	0	17	2	0.86
3742679--3742793	44	2.6	44	85	2	149	35	13	22	27	1.92
3742679--3742812	46	3.0	45	82	4	153	35	14	23	26	1.93
3744347--3744401	23	2.4	23	93	0	92	43	14	14	27	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3748417--3748466	24	2.1	24	88	0	73	38	30	2	30	1.69
3748433--3748500	32	2.3	28	75	18	73	33	38	1	26	1.66
3748442--3748502	32	1.9	32	93	0	104	31	36	1	31	1.68
3757577--3757612	12	3.1	11	85	14	54	86	0	13	0	0.58
3775790--3775815	12	2.2	12	100	0	52	38	0	0	61	0.96
3782914--3782986	37	2.0	37	94	0	128	50	12	5	31	1.62
3784172--3784380	103	2.0	102	91	0	337	32	11	14	41	1.81
3795670--3795701	15	2.1	15	94	0	55	65	0	12	21	1.25
3798924--3798950	8	3.4	8	100	0	54	55	0	0	44	0.99
3799793--3799840	25	1.9	26	87	8	73	43	0	0	56	0.99

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