genome.fa.s19.2.7.7.80.10.50.1000.15.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   

This is table  15  of  230  ( 27491 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)
4228998--4229049	15	3.6	15	80	12	56	53	1	0	44	1.11
4236078--4236172	47	2.0	47	100	0	190	46	12	0	41	1.42
4236709--4236803	34	2.7	34	78	3	100	41	18	8	31	1.81
4236971--4237061	41	2.2	41	92	2	146	23	28	20	27	1.99
4239142--4239274	42	3.2	42	82	4	126	17	18	15	48	1.81
4239184--4239290	21	5.1	21	68	0	79	15	19	15	48	1.81
4239172--4239293	42	2.9	42	85	0	154	18	18	15	47	1.83
4240835--4241188	42	8.4	42	87	3	437	33	20	19	25	1.97
4241609--4241648	12	3.3	12	92	0	53	2	37	17	42	1.63
4241633--4241695	21	3.0	21	85	0	81	3	41	19	36	1.67
4244084--4244405	42	7.1	41	62	26	107	48	5	6	39	1.52
4244016--4244479	92	5.0	92	98	0	894	48	4	6	39	1.51
4244916--4244954	15	2.7	14	80	7	51	41	20	5	33	1.74
4245582--4245609	6	4.7	6	100	0	56	0	14	67	17	1.22
4247537--4247581	23	2.0	23	86	8	65	40	6	6	46	1.56
4255263--4255336	34	2.1	35	82	7	89	50	0	4	45	1.20
4257578--4257611	16	2.1	16	88	0	50	50	14	17	17	1.79
4260408--4260448	21	2.0	21	90	0	64	29	21	29	19	1.98
4262354--4262387	16	2.1	16	88	0	50	50	14	17	17	1.79
4280210--4280252	22	2.0	22	100	0	86	39	13	13	32	1.85
4284946--4284993	19	2.6	19	78	18	57	60	0	2	37	1.09
4292315--4292354	19	2.0	20	85	4	55	25	20	7	47	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4294243--4294282	21	1.9	21	89	0	62	12	15	7	65	1.47
4295223--4295249	14	1.9	14	100	0	54	81	7	0	11	0.87
4297702--4298616	44	20.8	44	66	12	268	29	18	24	28	1.98
4296573--4298631	529	3.9	529	94	0	3428	29	18	24	28	1.98
4296536--4298660	132	16.1	132	90	1	3274	29	18	24	28	1.98
4298652--4298747	43	2.2	44	90	1	149	33	11	25	30	1.91
4300262--4300294	15	2.1	16	88	5	50	21	3	3	72	1.11
4300300--4300359	3	19.7	3	76	10	50	28	3	1	66	1.17
4300300--4300362	21	3.1	21	75	11	69	28	3	1	66	1.16
4300300--4300363	9	6.8	9	76	13	58	28	3	1	67	1.15
4313661--4313721	29	2.1	28	84	3	77	24	14	18	42	1.88
4338657--4338774	57	2.1	57	96	0	218	40	12	19	27	1.88
4339057--4339249	11	19.2	11	71	21	122	58	0	2	39	1.10
4339093--4339148	29	1.9	29	100	0	112	58	0	0	41	0.98
4339057--4339249	40	4.8	41	89	7	247	58	0	2	39	1.10
4339115--4339237	50	2.5	48	85	11	167	61	0	2	35	1.09
4339088--4339248	50	3.3	46	76	15	137	59	0	1	39	1.09
4356496--4356539	21	2.1	21	100	0	88	45	13	9	31	1.75
4362291--4362374	17	4.7	17	71	16	62	38	1	0	60	1.04
4362319--4362384	11	6.4	11	73	21	54	36	3	0	60	1.12
4362330--4362383	28	1.9	28	81	7	65	35	3	0	61	1.14
4362302--4362396	39	2.5	40	91	6	160	33	2	0	64	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4362368--4362426	23	2.7	23	84	5	68	37	1	3	57	1.25
4365567--4365674	43	2.5	43	86	1	146	43	22	15	18	1.87
4365567--4365694	43	3.0	42	83	3	141	45	20	15	18	1.86
4365810--4365939	49	2.7	49	93	2	217	28	13	14	43	1.84
4370545--4370594	20	2.5	20	83	0	55	10	18	24	48	1.78
4371978--4372111	39	3.4	38	73	8	101	29	28	20	21	1.98
4372212--4372282	27	2.8	25	81	8	74	30	25	0	43	1.55
4372213--4372285	23	2.9	25	80	10	69	32	26	0	41	1.56
4372426--4372475	3	17.0	3	79	4	57	60	4	0	36	1.16
4372426--4372475	12	4.2	12	87	5	66	60	4	0	36	1.16
4372689--4372714	11	2.4	11	100	0	52	0	42	7	50	1.31
4373065--4373091	7	3.9	7	100	0	54	59	11	0	29	1.32
4373062--4373094	14	2.5	13	90	9	57	60	9	0	30	1.27
4374257--4374391	40	3.4	39	75	7	112	33	24	16	25	1.96
4376133--4376171	17	2.2	18	95	4	71	64	0	0	35	0.94
4376222--4376246	11	2.3	11	100	0	50	44	8	0	48	1.32
4381690--4381737	23	2.1	22	81	11	53	29	2	0	68	1.01
4382522--4382617	45	2.1	45	98	0	183	33	8	11	46	1.70
4390254--4390290	18	2.1	18	100	0	74	24	21	21	32	1.98
4396950--4397014	27	2.4	27	78	0	76	35	18	16	29	1.93
4401723--4401821	42	2.4	42	92	0	162	20	25	16	38	1.92
4402709--4402774	27	2.4	27	79	0	78	36	18	16	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4420602--4420644	18	2.4	18	84	7	52	55	2	0	41	1.12
4422988--4423057	20	3.3	21	80	11	65	40	0	1	58	1.07
4423006--4423058	20	2.7	21	88	8	76	35	0	3	60	1.15
4424944--4425006	33	1.9	33	84	9	85	44	4	3	47	1.40
4424999--4425032	17	1.9	18	88	5	52	8	23	14	52	1.69
4426595--4426742	41	3.6	41	90	0	242	24	28	18	28	1.98
4426928--4427022	41	2.3	41	98	0	181	23	27	21	28	1.99
4427372--4427396	2	12.5	2	100	0	50	52	0	0	48	1.00
4445893--4445942	26	1.9	26	87	0	73	10	20	24	46	1.81
4450391--4450440	26	1.9	26	83	0	64	10	18	24	48	1.78
4453889--4453925	7	5.3	7	96	0	65	18	43	13	24	1.86
4460836--4461221	190	2.0	190	98	0	745	34	20	17	27	1.95
4474247--4474283	7	5.3	7	96	0	65	18	43	13	24	1.86
4484942--4484973	11	2.9	11	90	0	55	75	18	0	6	1.01
4494359--4494392	17	2.0	17	88	0	50	64	8	0	26	1.22
4494945--4494970	7	3.7	7	100	0	52	15	0	61	23	1.33
4495598--4495644	14	3.4	14	79	2	51	80	2	6	10	0.96
4497300--4497347	22	2.2	22	85	3	62	25	4	6	64	1.35
4497761--4497846	27	3.2	26	76	9	91	66	6	2	24	1.28
4508567--4508602	17	2.1	17	94	0	63	27	13	33	25	1.94
4509254--4509290	16	2.3	16	95	0	65	37	5	32	24	1.78
4509459--4509748	120	2.4	120	96	1	537	52	4	1	42	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4541388--4541428	21	2.0	21	90	0	64	19	29	21	29	1.98
4550903--4551011	57	1.9	57	90	3	175	30	20	26	22	1.98
4556650--4556741	3	30.3	3	70	6	60	30	6	3	59	1.38
4557269--4557684	109	3.8	109	92	0	609	29	16	18	35	1.93
4560255--4560386	65	2.0	65	98	0	255	50	12	18	18	1.78
4575436--4575479	20	2.3	19	88	4	61	70	4	0	25	1.06
4576716--4577080	138	2.5	144	85	6	510	32	24	21	21	1.98
4591301--4591370	9	7.4	9	71	19	54	70	0	1	28	0.96
4591294--4591370	10	8.0	10	81	11	72	68	0	1	29	0.97
4592736--4592770	17	2.1	17	94	0	61	68	5	0	25	1.11
4593171--4593212	20	2.1	20	86	8	59	30	0	2	66	1.04
4598549--4598578	15	2.0	15	93	0	51	16	0	0	83	0.65
4598570--4598614	19	2.4	18	82	10	54	13	8	2	75	1.13
4598571--4598631	17	3.4	17	80	8	50	16	6	3	73	1.17
4598608--4598659	18	2.8	19	80	16	56	21	1	1	75	1.00
4598693--4598743	23	2.2	23	89	6	77	50	0	0	49	1.00
4598687--4598762	39	1.9	39	81	5	91	47	0	1	51	1.09
4598795--4598834	21	1.9	21	85	10	55	35	0	2	62	1.09
4599114--4599162	15	3.3	15	82	5	55	59	0	2	38	1.09
4599791--4599939	73	2.1	73	90	1	237	51	2	3	42	1.32
4600067--4600123	20	2.9	20	75	12	55	77	1	3	17	1.00
4600076--4600123	13	3.7	13	75	10	53	79	2	4	14	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4600142--4600185	20	2.2	20	80	4	54	77	0	6	15	0.97
4600265--4600293	15	2.0	15	93	6	51	37	0	0	62	0.96
4600402--4600449	21	2.2	22	85	3	62	47	2	2	47	1.25
4600546--4600589	21	2.2	20	91	4	70	63	0	0	36	0.95
4600460--4600611	13	12.9	11	68	24	64	56	1	1	40	1.16
4600581--4600623	21	2.0	23	90	9	72	58	0	0	41	0.98
4600372--4600632	144	1.8	144	83	4	350	52	1	1	43	1.23
4600652--4600729	36	2.1	37	81	11	90	76	3	3	15	1.07
4601549--4601598	18	2.5	20	75	15	59	52	14	18	16	1.76
4607008--4607072	25	2.6	25	78	4	78	15	30	18	35	1.92

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