genome.fa.s20.2.7.7.80.10.50.1000.185.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  185  of  199  ( 23844 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)
53744403--53744437	17	2.0	18	88	5	54	31	0	20	48	1.50
53746813--53746854	22	1.9	22	90	0	66	33	0	33	33	1.58
53746856--53746947	22	4.2	23	80	13	104	41	0	28	30	1.56
53746804--53746906	52	2.0	51	81	12	122	33	0	33	33	1.58
53746856--53746947	44	2.1	44	84	8	116	41	0	28	30	1.56
53765448--53765521	37	2.0	38	91	2	123	50	10	5	33	1.60
53770170--53770229	30	2.0	30	83	3	75	40	0	38	21	1.54
53770413--53770448	18	2.0	18	94	0	63	30	5	13	50	1.65
53770501--53770531	9	3.4	9	90	0	53	38	22	12	25	1.90
53771734--53771841	57	1.9	57	82	3	137	23	9	18	49	1.76
53782778--53782827	26	1.9	27	88	8	77	50	6	14	30	1.66
53782783--53782839	24	2.3	25	82	8	64	49	8	8	33	1.65
53784420--53784542	44	2.8	44	79	4	140	27	22	20	29	1.98
53784595--53784890	129	2.3	129	88	2	434	28	19	20	32	1.97
53784694--53785185	173	2.8	173	84	1	599	27	19	20	32	1.96
53784602--53785340	44	17.0	44	72	9	313	26	20	20	32	1.97
53784592--53785329	129	5.7	127	76	9	383	26	19	20	32	1.97
53785331--53786299	50	19.4	50	74	1	695	25	20	21	33	1.97
53785334--53786093	100	7.6	100	89	0	1106	24	20	21	33	1.97
53786808--53786894	45	1.9	45	83	0	111	47	9	14	28	1.75
53787171--53787229	13	4.6	13	74	17	52	3	11	3	81	0.94
53787173--53787229	14	4.0	13	78	14	51	3	10	3	82	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53787660--53787702	15	2.9	14	80	13	50	2	4	6	86	0.79
53790861--53790911	26	2.0	27	88	7	79	49	5	13	31	1.66
53790867--53790923	24	2.3	25	82	8	64	49	8	8	33	1.65
53794970--53795020	24	2.2	23	89	3	75	64	1	0	33	1.05
53800971--53801022	24	2.2	24	92	0	86	51	7	3	36	1.49
53802706--53802901	100	2.0	100	86	0	275	30	18	13	37	1.89
53805442--53805506	24	2.5	24	82	9	76	49	6	1	43	1.37
53819641--53819678	18	2.1	19	85	14	53	55	2	0	42	1.14
53819910--53819947	19	2.0	19	90	10	60	55	0	7	36	1.29
53822027--53822121	38	2.5	38	87	0	145	38	20	8	32	1.82
53822513--53822624	9	12.4	9	89	0	152	22	8	26	41	1.83
53831660--53831700	6	6.7	6	97	2	73	17	0	17	65	1.27
53834197--53834254	30	1.9	31	89	3	91	24	18	6	50	1.72
53834195--53834264	30	2.3	31	80	2	88	28	17	7	47	1.74
53839888--53839924	18	2.2	16	90	9	56	40	0	0	59	0.97
53856134--53856231	49	2.0	49	100	0	196	34	10	16	38	1.82
53859209--53859243	14	2.5	14	86	13	54	40	0	8	51	1.33
53870587--53870618	15	2.0	17	88	11	50	56	9	0	34	1.32
53873222--53873460	18	12.8	19	71	14	83	38	10	11	38	1.76
53873233--53873402	36	4.6	37	75	10	136	39	10	10	40	1.72
53873268--53873464	38	5.3	37	72	10	152	39	9	12	39	1.75
53873282--53873423	73	2.0	72	84	6	189	38	9	11	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53873413--53873452	21	2.0	20	90	5	62	32	10	12	45	1.75
53874188--53874256	7	10.3	7	76	14	58	0	20	0	79	0.73
53874187--53874268	10	8.0	10	78	16	80	0	21	0	78	0.76
53874189--53874266	19	4.4	18	82	10	108	0	21	0	78	0.76
53874188--53874266	13	6.2	13	78	11	67	0	21	0	78	0.75
53874195--53874278	13	6.5	13	80	9	50	0	25	0	75	0.81
53874896--53874959	30	2.1	31	82	2	76	39	3	28	29	1.72
53875342--53876222	75	11.7	75	82	7	977	33	21	18	27	1.96
53875344--53876220	148	5.8	149	82	9	900	33	21	18	27	1.96
53875342--53876214	223	3.8	227	85	7	1078	33	21	18	27	1.96
53877137--53877162	7	3.7	7	100	0	52	0	0	11	88	0.52
53887980--53888033	23	2.3	23	76	17	58	51	7	3	37	1.48
53888489--53888521	16	2.0	17	88	5	50	45	9	0	45	1.35
53889159--53889195	9	4.1	9	89	0	56	48	13	8	29	1.71
53889231--53889273	21	2.0	21	82	8	52	20	37	0	41	1.53
53889244--53889304	30	2.0	31	90	3	97	19	44	0	36	1.51
53891069--53891249	100	1.8	100	81	4	231	35	19	14	29	1.92
53893604--53893645	13	2.9	14	80	13	50	54	0	0	45	0.99
53893608--53893644	16	2.3	16	86	13	58	59	0	0	40	0.97
53895718--53895747	15	2.0	15	93	0	51	60	6	3	30	1.39
53897316--53897382	31	2.2	31	86	0	89	37	29	13	19	1.90
53898766--53898820	5	11.0	5	96	0	83	45	0	14	40	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53898898--53898949	24	2.2	24	92	0	86	38	3	9	48	1.54
53903242--53903294	24	2.2	24	89	0	79	37	3	9	49	1.53
53903249--53903305	24	2.4	24	85	5	71	36	5	10	47	1.61
53903626--53903672	18	2.6	18	77	12	51	46	6	4	42	1.48
53905775--53905822	18	2.7	18	81	9	62	37	16	4	41	1.68
53909047--53909078	6	5.3	6	100	0	64	65	0	0	34	0.93
53910393--53910421	13	2.1	14	93	6	51	24	20	6	48	1.74
53920626--53920701	26	3.0	25	79	9	73	34	15	7	42	1.76
53923363--53923448	34	2.5	34	98	0	163	47	0	2	50	1.14
53923362--53923447	11	7.6	11	69	14	59	47	0	2	50	1.14
53925112--53925146	17	2.0	18	88	5	54	54	0	20	25	1.45
53925793--53925830	9	4.3	9	86	6	60	73	0	26	0	0.83
53925793--53925826	4	8.0	4	87	12	50	73	0	26	0	0.83
53925793--53925830	13	2.9	13	92	0	67	73	0	26	0	0.83
53926199--53926232	17	1.9	18	88	5	52	41	0	23	35	1.55
53926626--53926651	13	2.0	13	100	0	52	7	53	7	30	1.57
53927155--53927188	4	8.0	4	93	6	50	0	29	0	70	0.87
53927886--53927919	17	2.0	17	88	11	52	26	20	0	52	1.46
53929298--53929331	17	2.0	17	88	0	50	38	0	2	58	1.13
53929305--53929342	17	2.2	18	86	9	53	42	0	0	57	0.98
53929303--53929342	18	2.3	18	86	4	55	42	0	0	57	0.98
53929359--53929403	20	2.3	19	81	11	54	42	4	2	51	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53950782--53950811	3	10.0	3	92	0	51	33	3	0	63	1.11
53957110--53957145	15	2.4	15	85	0	54	55	5	5	33	1.46
53963303--53963467	75	2.2	75	97	0	312	22	25	15	36	1.93
53967780--53967811	16	2.0	16	100	0	64	56	0	12	31	1.37
53968133--53968173	16	2.6	16	88	0	64	46	7	2	43	1.44
53969008--53969175	43	4.0	43	88	1	223	25	30	19	23	1.98
53969018--53969175	85	1.9	85	86	2	228	24	32	20	22	1.98
53971291--53971362	25	2.9	25	100	0	144	19	27	20	31	1.97
53971362--53971417	22	2.5	22	88	0	85	14	25	17	42	1.87
53972653--53972756	47	2.1	50	82	10	135	22	14	29	33	1.93
53978882--53978923	20	2.1	21	86	8	61	71	4	0	23	1.05
53982780--53982875	50	1.9	50	82	0	120	39	34	0	26	1.56
53982842--53982889	7	6.9	7	87	0	60	33	43	0	22	1.54
53982873--53982913	21	2.0	21	85	9	57	41	26	0	31	1.56
53983924--53984168	41	6.0	41	77	7	221	30	30	18	20	1.97
53983995--53984147	81	1.9	82	86	4	220	28	33	19	17	1.95
53984232--53984347	40	3.0	40	76	2	128	24	23	18	34	1.96
53985003--53985027	13	1.9	13	100	0	50	40	16	20	24	1.91
53987085--53987124	19	2.0	20	85	4	55	47	5	0	47	1.24
53989232--53989290	24	2.6	23	86	7	77	55	1	6	35	1.36
54010570--54010691	45	2.7	45	97	0	226	15	34	10	39	1.82
54010943--54011054	54	2.1	54	89	3	172	22	29	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54015054--54015157	30	3.5	30	69	8	86	40	11	23	25	1.88
54015025--54015157	61	2.2	61	90	1	214	42	11	22	24	1.86
54028574--54028600	13	2.1	13	100	0	54	55	0	7	37	1.28
54034884--54034923	11	3.6	11	86	6	55	22	20	0	57	1.41
54037070--54037263	93	2.1	92	95	0	343	36	2	5	56	1.35
54037289--54037318	9	3.4	9	90	9	53	36	0	0	63	0.95
54040354--54040752	126	3.2	126	88	2	552	30	16	15	37	1.90
54040803--54040925	33	3.7	32	83	13	149	47	14	0	38	1.45
54040803--54040918	34	3.5	31	82	13	133	47	13	0	38	1.43
54044327--54044390	30	2.1	30	82	5	76	48	7	1	42	1.41

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