genome.fa.s19.2.7.7.80.10.50.1000.17.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  17  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)
4792472--4792530	30	2.0	30	93	0	100	33	32	0	33	1.58
4792585--4792639	26	2.0	26	89	6	83	41	0	1	56	1.10
4792588--4792646	27	2.1	28	84	9	77	40	0	1	57	1.09
4792729--4792774	24	1.9	24	82	8	58	30	0	6	63	1.20
4792736--4792788	22	2.2	24	83	9	65	30	0	5	64	1.17
4792737--4792789	24	2.2	23	78	15	54	28	0	5	66	1.15
4794918--4794952	18	2.0	18	88	5	54	48	20	0	31	1.50
4794906--4795146	28	9.9	23	74	17	134	46	21	0	31	1.55
4794938--4795807	28	31.5	28	78	13	728	46	22	0	31	1.54
4795026--4795140	21	5.0	21	74	17	79	47	17	0	33	1.54
4795147--4795347	23	7.9	23	72	22	152	46	21	0	31	1.52
4795285--4795319	18	2.0	18	88	5	54	48	20	0	31	1.50
4795411--4795807	62	6.8	62	75	19	374	45	22	0	31	1.55
4795640--4795760	23	5.0	23	79	15	127	46	22	0	31	1.52
4795765--4795817	23	2.3	23	80	0	70	43	20	0	35	1.52
4798978--4799241	125	2.1	125	86	6	374	34	23	13	28	1.93
4800869--4800933	3	21.7	3	100	0	130	33	0	0	66	0.92
4803903--4803994	43	2.1	45	84	8	118	32	2	1	64	1.13
4803938--4804000	30	2.1	31	90	3	101	30	3	1	65	1.18
4806407--4806596	51	3.7	51	84	2	249	25	14	28	31	1.95
4806411--4806632	51	4.4	51	81	3	241	27	13	27	31	1.93
4818638--4818710	23	3.2	23	82	3	76	53	16	17	12	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4821389--4821431	17	2.5	17	76	0	50	72	11	2	13	1.22
4833713--4833911	59	3.3	58	72	14	206	41	0	3	54	1.21
4833833--4833967	18	8.0	17	70	19	95	40	0	1	57	1.13
4833691--4833933	120	2.0	120	97	0	459	42	1	4	51	1.28
4833848--4833906	26	2.3	25	85	8	82	40	0	1	57	1.09
4833861--4833916	15	4.0	15	73	17	57	44	0	0	55	0.99
4833712--4833952	41	5.9	41	69	23	136	41	0	3	54	1.23
4833937--4833992	27	2.0	27	82	3	67	42	1	0	55	1.10
4834130--4834184	21	2.6	21	91	0	92	27	32	9	30	1.88
4838960--4838997	3	12.7	3	100	0	76	68	0	0	31	0.90
4846027--4846234	44	4.7	43	80	4	218	17	27	23	31	1.97
4846027--4846234	90	2.3	88	86	6	287	17	27	23	31	1.97
4849870--4849921	16	3.1	18	69	30	51	53	9	7	28	1.61
4851034--4851072	20	2.0	20	85	10	53	71	5	17	5	1.23
4865458--4865509	15	3.5	15	81	7	61	28	9	0	61	1.27
4867518--4867561	19	2.3	20	84	7	56	27	20	11	40	1.86
4871691--4872023	86	3.9	86	93	0	522	25	22	24	27	2.00
4871760--4871891	41	3.1	41	62	19	99	27	21	25	25	2.00
4871814--4871948	42	3.2	42	62	19	98	26	26	22	23	2.00
4872048--4872244	45	4.4	45	64	13	118	27	18	23	29	1.98
4871971--4872290	134	2.4	134	92	2	520	27	18	23	30	1.97
4872235--4872816	44	13.2	44	69	7	340	28	16	25	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4872243--4872835	132	4.5	132	94	0	911	28	17	24	30	1.97
4874910--4874961	15	3.5	15	81	7	61	28	9	0	61	1.27
4876255--4876979	44	16.5	44	80	0	779	21	24	20	33	1.97
4878328--4878383	22	2.5	22	80	11	60	8	5	8	76	1.14
4878328--4878383	23	2.5	22	82	5	67	8	5	8	76	1.14
4882976--4883027	16	3.1	18	69	30	51	53	9	7	28	1.61
4886163--4886223	3	19.7	3	74	12	52	60	8	1	29	1.35
4886163--4886191	15	1.9	15	100	0	58	62	10	0	27	1.28
4894802--4895222	44	9.6	44	74	10	240	27	22	20	29	1.98
4894843--4895180	173	1.9	174	80	7	384	27	22	20	29	1.98
4894834--4895310	217	2.2	217	91	0	774	27	21	20	30	1.98
4901434--4901478	18	2.5	19	78	10	58	60	13	8	17	1.58
4902734--4902768	18	1.9	18	88	11	54	68	2	0	28	1.04
4908005--4908312	109	2.9	109	89	2	435	30	16	18	33	1.94
4910861--4910913	27	2.0	27	85	14	74	0	35	1	62	1.06
4911119--4911169	13	3.9	13	77	10	59	60	1	0	37	1.08
4923218--4923473	50	5.2	49	72	10	175	33	22	21	23	1.97
4923204--4923639	99	4.4	99	80	7	297	31	22	20	25	1.98
4923458--4923613	50	3.1	50	70	7	156	30	21	21	25	1.98
4923260--4923633	99	3.8	99	81	5	341	32	22	21	24	1.98
4924500--4924535	15	2.4	15	90	0	54	33	5	0	61	1.19
4924512--4924593	3	27.3	3	72	4	58	37	6	0	56	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4925042--4925083	10	4.4	10	85	11	52	26	4	0	69	1.08
4925269--4925670	109	3.7	109	88	1	578	30	15	19	34	1.93
4927278--4927350	23	3.2	23	84	3	85	52	16	19	12	1.75
4929876--4929923	21	2.3	22	89	7	73	68	4	4	22	1.24
4931834--4931876	22	1.9	23	85	4	61	55	6	2	34	1.39
4932828--4932878	26	2.0	26	84	0	66	56	1	5	35	1.35
4936146--4936479	73	4.5	74	78	5	311	24	21	24	29	1.99
4936396--4936609	114	1.9	115	92	1	358	27	20	23	28	1.99
4936390--4936637	114	2.2	114	83	6	324	26	20	22	30	1.98
4937072--4937131	21	2.9	21	74	0	57	26	1	23	48	1.60
4937176--4937213	20	1.9	20	88	0	58	18	0	34	47	1.49
4937891--4938129	115	2.1	114	88	0	361	28	17	20	33	1.96
4938392--4938707	173	1.8	169	92	4	535	24	38	9	26	1.86
4940241--4940299	9	6.8	9	76	5	59	49	18	1	30	1.58
4940339--4940389	19	2.8	18	85	5	68	43	0	1	54	1.11
4940412--4941020	9	68.7	9	69	16	314	44	17	1	36	1.59
4940413--4940843	34	13.0	34	73	15	163	45	16	2	35	1.60
4940413--4940967	16	33.9	16	71	17	290	45	17	1	35	1.60
4940485--4940952	196	2.4	196	95	2	841	45	16	1	36	1.59
4940412--4940967	25	22.6	25	68	17	239	45	17	1	35	1.60
4940928--4941020	25	3.6	24	76	18	71	44	16	0	39	1.47
4940485--4941020	196	2.7	192	91	5	776	45	16	1	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4946505--4946572	21	3.2	21	91	0	82	35	20	39	4	1.73
4947107--4947266	83	1.9	84	87	3	234	25	20	20	33	1.97
4947030--4947266	42	5.7	41	84	4	242	26	19	19	35	1.95
4956489--4956535	21	2.2	22	92	3	78	21	19	38	21	1.94
4966703--4966990	44	6.7	44	75	14	194	28	22	21	28	1.99
4966977--4967631	132	5.0	132	92	0	1067	25	24	19	30	1.98
4967203--4967520	44	7.2	44	65	13	179	24	25	21	29	1.99
4967071--4967532	44	10.5	44	63	8	177	25	24	19	29	1.98
4967771--4967803	16	2.1	16	88	5	50	24	3	12	60	1.46
4968842--4968871	6	4.8	6	92	8	51	0	0	13	86	0.57
4968833--4968872	7	5.9	7	83	16	57	0	0	12	87	0.54
4968834--4968873	13	2.9	14	92	7	73	0	0	12	87	0.54
4973406--4973602	98	2.0	98	94	0	349	36	25	10	27	1.89
4975038--4975086	22	2.2	22	85	7	64	36	18	6	38	1.76
4975065--4975196	19	6.8	19	87	5	194	37	15	10	36	1.83
4975058--4975195	59	2.4	59	88	7	196	36	15	10	36	1.82
4976941--4976982	18	2.3	18	80	8	50	59	16	9	14	1.60
4979102--4979140	16	2.4	16	80	12	53	79	2	2	15	0.95
4979986--4980030	23	2.0	23	100	0	90	46	4	17	31	1.68
4985813--4985885	23	3.2	23	80	3	76	52	15	19	13	1.75
4986377--4986417	4	10.2	4	100	0	82	24	0	24	51	1.49
4988408--4988449	20	2.0	21	86	4	59	66	4	7	21	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4990350--4990391	22	1.9	22	90	0	66	57	7	2	33	1.39
4992210--4992234	12	2.1	12	100	0	50	40	44	0	16	1.47
4992378--4992435	8	6.9	8	79	11	62	22	10	24	43	1.84
4992372--4992424	17	2.9	18	80	8	63	20	11	22	45	1.83
4992374--4992435	25	2.4	25	81	7	72	20	11	24	43	1.85
4992378--4992435	17	3.4	16	81	9	62	22	10	24	43	1.84
5008127--5008170	19	2.3	19	84	7	54	63	4	2	29	1.26
5008235--5008290	29	2.0	28	86	6	78	64	3	1	30	1.21
5009004--5009042	16	2.4	16	80	12	53	79	2	2	15	0.95
5015297--5015365	23	3.1	23	79	4	70	52	14	20	13	1.74

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