genome.fa.s17.2.7.7.80.10.50.1000.184.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  184  of  185  ( 22116 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)
56170211--56170265	11	5.0	11	72	14	51	63	0	1	34	1.05
56170187--56170235	26	1.9	25	87	4	71	69	2	2	26	1.10
56170590--56170635	24	1.9	24	81	0	56	28	2	2	67	1.14
56174654--56174716	31	2.0	31	87	0	90	33	11	11	44	1.75
56178814--56178869	23	2.4	23	82	11	69	62	3	0	33	1.12
56185898--56185949	25	2.1	24	82	13	61	73	5	1	19	1.14
56188959--56189409	235	1.9	236	86	2	645	37	10	13	39	1.78
56201290--56201331	16	2.6	16	84	0	57	54	7	2	35	1.41
56201429--56201457	3	9.7	3	100	0	58	34	0	0	65	0.93
56209732--56209765	17	1.9	18	88	5	52	52	11	0	35	1.38
56213188--56213220	14	2.3	15	89	5	50	60	0	3	36	1.12
56225219--56225252	17	1.9	18	88	5	52	52	11	0	35	1.38
56228677--56228709	14	2.3	15	89	5	50	60	0	3	36	1.12
56229917--56229983	23	2.7	25	86	11	102	0	38	20	40	1.53
56234597--56234778	93	2.0	93	83	2	231	26	23	13	36	1.91
56238744--56238769	13	2.0	13	100	0	52	23	7	0	69	1.14
56243391--56243415	8	3.1	8	100	0	50	36	0	0	64	0.94
56246735--56246772	19	2.0	19	85	10	51	34	0	5	60	1.19
56251214--56251253	18	2.2	18	86	0	53	17	15	25	42	1.88
56253725--56253915	95	2.0	95	100	0	382	31	12	15	40	1.85
56255209--56255241	16	2.1	16	88	5	50	27	0	0	72	0.85
56257434--56257459	4	6.5	4	100	0	52	76	0	23	0	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56267593--56267624	9	3.6	9	91	0	55	40	21	12	25	1.88
56270076--56270132	24	2.4	25	82	11	75	47	0	3	49	1.18
56273643--56274157	274	1.9	276	87	2	757	44	9	11	34	1.73
56274204--56274821	155	4.0	154	82	3	699	39	10	14	35	1.81
56276051--56277644	280	5.7	284	74	12	1133	42	10	12	34	1.76
56276945--56277172	119	1.9	119	85	5	318	40	12	15	31	1.84
56277054--56278095	147	7.1	149	76	10	898	41	11	13	33	1.80
56277964--56278888	277	3.3	277	79	8	943	44	10	12	33	1.76
56288298--56288335	20	1.9	19	89	5	58	50	15	2	31	1.58
56298157--56298190	15	2.4	14	90	5	50	38	5	2	52	1.41
56298863--56299064	108	1.9	108	88	2	307	28	16	18	37	1.92
56299827--56299874	25	1.9	25	83	8	62	43	2	2	52	1.24
56303357--56303421	29	2.2	29	83	2	76	41	15	7	35	1.76
56308658--56308769	54	2.1	54	94	0	197	27	17	25	29	1.98
56321450--56321477	3	9.3	3	100	0	56	32	0	0	67	0.91
56322517--56322588	35	2.1	35	81	5	83	26	2	12	58	1.48
56329639--56329663	4	6.2	4	100	0	50	76	0	24	0	0.80
56330394--56330467	31	2.4	31	77	4	78	48	12	17	21	1.79
56337093--56337124	15	2.1	15	94	0	55	0	21	28	50	1.49
56343526--56343559	15	2.3	15	89	0	50	17	14	8	58	1.61
56345465--56345589	62	2.0	62	90	0	196	38	24	8	28	1.85
56346817--56346850	12	2.8	12	90	0	59	79	5	14	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56346817--56346885	10	6.4	11	75	11	54	79	5	11	2	1.01
56347307--56347356	13	3.7	14	79	12	52	80	0	16	4	0.87
56347295--56347357	6	10.2	6	75	21	51	77	1	17	3	0.97
56347307--56347356	7	7.4	7	74	17	52	80	0	16	4	0.87
56347295--56347357	13	5.1	12	72	25	51	77	1	17	3	0.97
56347679--56347885	108	1.9	108	86	2	290	24	16	11	47	1.79
56348313--56348576	86	3.1	86	91	0	411	26	21	24	28	1.99
56348575--56348762	97	2.0	96	92	2	315	29	18	23	28	1.98
56348729--56348925	46	4.4	46	65	16	142	25	20	22	30	1.98
56348662--56349030	134	2.7	134	93	0	630	28	20	22	29	1.98
56348933--56349125	95	2.0	95	92	2	325	30	19	21	28	1.98
56348798--56349350	229	2.4	225	90	3	876	28	20	21	28	1.98
56349161--56349445	95	3.0	95	90	4	438	29	20	21	28	1.98
56349558--56349987	44	9.8	45	74	5	351	28	17	24	29	1.97
56349558--56349968	132	3.1	132	95	0	707	28	17	25	28	1.97
56352331--56352364	15	2.3	15	89	0	50	17	14	8	58	1.61
56354270--56354394	62	2.0	62	90	0	196	38	24	8	28	1.85
56355619--56355654	13	2.7	13	95	4	63	83	8	8	0	0.82
56355620--56355676	12	4.8	12	72	6	53	80	5	12	1	0.95
56356113--56356162	13	3.7	14	79	12	52	80	0	16	4	0.87
56356101--56356163	6	10.2	6	75	21	51	77	1	17	3	0.97
56356113--56356162	7	7.4	7	74	17	52	80	0	16	4	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56356101--56356163	13	5.1	12	72	25	51	77	1	17	3	0.97
56356485--56356691	108	1.9	108	86	2	290	24	16	11	47	1.79
56357119--56357382	86	3.1	86	91	0	411	26	21	24	28	1.99
56357381--56357568	97	2.0	96	92	2	315	29	18	23	28	1.98
56357535--56357731	46	4.4	46	65	16	142	25	20	22	30	1.98
56357468--56357836	134	2.7	134	93	0	630	28	20	22	29	1.98
56357739--56357931	95	2.0	95	92	2	325	30	19	21	28	1.98
56357604--56358161	230	2.4	230	92	1	931	29	20	21	28	1.98
56358015--56358159	45	3.1	45	64	19	107	28	20	22	28	1.98
56357967--56358256	95	3.0	95	93	1	483	30	20	21	27	1.98
56358369--56358761	132	3.0	132	95	0	689	27	17	25	29	1.98
56358369--56358750	44	8.7	45	75	4	348	28	17	25	28	1.98
56359639--56359672	15	2.3	15	89	0	50	17	14	8	58	1.61
56360752--56360812	31	2.0	31	90	0	95	24	16	19	39	1.92
56364464--56364494	15	2.0	16	93	6	55	6	6	41	45	1.55
56373574--56373630	16	3.5	17	73	7	55	50	22	1	24	1.58
56373757--56373800	22	2.0	22	82	8	54	31	0	4	63	1.14
56377253--56377421	56	3.0	56	92	2	266	48	17	6	27	1.71
56389894--56389924	12	2.6	12	94	0	53	6	22	41	29	1.78
56392955--56393108	51	3.0	51	98	1	292	45	18	7	28	1.77
56393054--56393164	33	3.4	34	82	10	115	43	17	8	31	1.78
56396212--56396298	28	3.1	28	69	17	74	43	1	2	52	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56396399--56396611	67	3.2	66	64	19	150	46	3	3	45	1.38
56396355--56396620	137	1.9	138	90	0	426	47	4	3	44	1.41
56396503--56396537	18	2.0	17	88	5	52	45	0	0	54	0.99
56396389--56396603	70	3.1	69	66	18	167	46	3	4	46	1.40
56396388--56396806	156	2.9	145	84	8	473	47	5	3	43	1.43
56396479--56396806	156	2.1	156	95	0	602	47	6	3	43	1.44
56396659--56396707	15	2.9	18	80	20	61	44	0	0	55	0.99
56396659--56396713	15	3.4	16	80	16	53	43	0	1	54	1.10
56396553--56396766	50	4.2	51	63	20	131	47	5	2	44	1.39
56396858--56396948	45	2.0	45	85	2	121	37	28	6	27	1.82
56396929--56396980	16	3.2	16	94	0	95	40	34	0	25	1.56
56404120--56404342	101	2.2	101	86	1	295	26	24	17	30	1.97
56410003--56410044	21	2.0	21	86	9	59	40	33	4	21	1.74
56423509--56423570	28	2.1	31	85	8	85	35	3	6	54	1.42
56423509--56423577	31	2.4	28	85	7	84	39	2	5	52	1.41
56428026--56428070	21	2.1	21	95	0	81	28	4	22	44	1.72
56434364--56434413	24	2.2	24	85	7	68	58	4	12	26	1.51
56434399--56434437	16	2.4	17	86	4	53	56	2	2	38	1.27
56436312--56436352	15	2.6	16	84	3	57	46	0	0	53	1.00
56436611--56436635	12	2.1	12	100	0	50	40	0	8	52	1.31
56447279--56447308	5	6.0	5	100	0	60	20	20	40	20	1.92
56448375--56448425	16	3.1	16	73	15	50	35	0	1	62	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56448375--56448426	17	3.1	17	73	15	63	36	0	1	61	1.07
56449248--56449295	23	2.1	23	84	7	62	75	2	12	10	1.14
56460350--56460542	95	2.0	95	100	0	386	29	10	22	37	1.87
56473917--56473943	3	9.0	3	100	0	54	33	33	33	0	1.58
56478780--56478867	45	2.0	45	86	0	122	15	25	18	40	1.90
56482412--56482440	15	1.9	15	100	0	58	48	3	20	27	1.66
56484600--56484634	18	1.9	18	94	0	61	0	51	5	42	1.25
56484698--56484724	6	4.5	6	100	0	54	0	66	0	33	0.92
56493489--56493513	13	1.9	13	100	0	50	24	40	4	32	1.73
56494490--56494864	154	2.5	154	81	3	390	38	8	10	42	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