genome.fa.s17.2.7.7.80.10.50.1000.131.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  131  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)
40756267--40756412	34	4.3	34	78	3	150	31	13	13	41	1.83
40756519--40756711	45	4.3	45	78	2	156	24	18	21	35	1.96
40764014--40764234	96	2.3	96	84	2	282	39	2	18	39	1.63
40764277--40764564	126	2.3	126	91	0	450	34	19	19	26	1.96
40768255--40768297	18	2.4	18	88	0	59	44	9	27	18	1.80
40770105--40770182	33	2.3	33	85	12	106	46	1	29	23	1.60
40770105--40770182	11	7.1	10	82	15	75	46	1	29	23	1.60
40775564--40775589	3	8.7	3	100	0	52	69	0	0	30	0.89
40778917--40778954	19	2.0	19	100	0	76	31	5	21	42	1.75
40786567--40786615	25	2.0	25	87	0	71	34	18	10	36	1.85
40787390--40787709	97	3.3	96	85	3	412	43	2	17	36	1.63
40787745--40787832	33	2.7	33	70	10	81	59	0	2	38	1.10
40788261--40788286	11	2.4	11	100	0	52	57	0	0	42	0.98
40788265--40788305	18	2.4	17	87	4	55	51	0	0	48	1.00
40788463--40788541	39	2.0	40	85	5	106	24	26	24	25	2.00
40789523--40789558	17	2.1	18	89	5	56	13	36	30	19	1.91
40793686--40793724	17	2.3	17	90	0	60	23	23	28	25	1.99
40800756--40800851	47	2.0	47	93	0	165	41	5	5	47	1.48
40804034--40804141	43	2.5	43	86	1	144	33	24	14	27	1.94
40804256--40804338	31	2.7	30	76	7	87	44	16	8	30	1.78
40804256--40804349	31	3.1	30	70	10	82	46	17	7	28	1.74
40806690--40807068	190	2.0	190	96	0	695	32	14	15	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40808000--40808044	12	3.9	12	80	11	58	46	0	4	48	1.22
40808000--40808052	22	2.4	22	96	0	97	45	1	3	49	1.31
40807995--40808120	58	2.1	60	83	2	157	44	0	3	50	1.26
40808298--40808349	16	3.2	16	78	5	61	32	23	1	42	1.65
40809503--40809610	14	7.7	14	73	0	81	36	21	17	25	1.95
40809648--40809702	27	2.0	26	86	6	74	20	32	23	23	1.98
40809652--40809711	28	2.2	27	90	3	93	23	31	21	23	1.98
40809720--40809830	34	3.3	34	85	1	152	27	18	24	28	1.98
40809770--40809845	33	2.5	31	78	8	75	28	21	26	23	1.99
40811049--40811095	21	2.2	21	92	0	76	44	4	12	38	1.62
40815410--40815545	69	2.0	69	89	0	209	29	25	15	30	1.96
40815407--40815564	69	2.3	69	84	0	208	27	25	17	29	1.97
40825664--40825886	111	2.0	111	95	0	403	30	12	4	52	1.57
40828079--40828114	18	2.0	18	88	0	54	22	36	19	22	1.95
40829695--40829785	45	2.0	45	100	0	182	32	13	17	36	1.88
40833223--40833247	5	5.0	5	100	0	50	80	0	0	20	0.72
40834238--40834275	20	1.9	20	88	0	58	18	28	13	39	1.88
40834309--40834359	20	2.5	20	81	9	59	7	29	25	37	1.84
40837151--40837214	32	2.0	32	90	0	101	20	17	20	42	1.90
40840480--40840534	29	2.0	27	82	7	65	58	1	9	30	1.40
40841718--40841752	18	1.9	18	88	0	52	20	22	28	28	1.98
40842138--40842249	44	2.5	44	82	2	127	29	20	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40842276--40843299	44	23.5	42	73	12	355	30	25	15	28	1.96
40842480--40843301	44	18.6	44	77	5	730	30	25	15	28	1.96
40842482--40843301	89	9.3	89	77	5	786	30	25	15	28	1.96
40842480--40843301	133	6.2	133	91	1	1330	30	25	15	28	1.96
40853844--40853889	23	2.0	23	100	0	92	21	39	13	26	1.90
40855151--40855225	19	3.8	19	84	6	96	38	16	9	36	1.80
40855162--40855224	21	3.1	21	86	9	103	39	14	9	36	1.78
40874411--40874468	18	2.8	20	80	15	57	43	1	1	53	1.21
40890120--40890170	25	2.0	25	92	0	84	39	9	0	50	1.35
40892574--40892637	18	3.6	17	78	14	58	64	1	3	31	1.19
40899283--40899349	29	2.3	29	82	12	84	47	1	1	49	1.19
40900371--40900409	20	2.0	19	85	5	51	48	5	5	41	1.47
40901654--40901696	20	2.0	21	86	8	61	44	2	2	51	1.27
40903228--40903349	60	2.0	60	98	0	235	53	9	12	24	1.68
40907276--40907315	21	1.9	21	84	0	53	32	27	7	32	1.85
40908606--40908655	20	2.5	19	81	12	55	52	2	0	46	1.12
40908619--40908662	20	2.2	20	84	4	54	50	4	2	43	1.35
40912061--40912243	43	4.3	43	91	0	294	30	31	18	20	1.96
40915628--40915698	21	3.3	22	72	21	62	66	12	5	15	1.42
40916309--40916361	9	5.4	9	76	12	52	43	3	0	52	1.19
40916691--40916746	18	2.9	18	78	14	58	51	16	17	14	1.76
40916948--40916987	21	1.9	21	89	0	62	42	37	0	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40916975--40917028	14	3.8	14	78	4	54	50	29	0	20	1.49
40917038--40917086	14	3.5	14	80	0	53	48	32	0	18	1.48
40917266--40917633	41	9.0	41	86	0	477	28	30	19	21	1.97
40929833--40929870	20	2.0	19	90	10	60	50	10	7	31	1.66
40932226--40932415	29	6.6	30	71	13	116	22	15	11	50	1.75
40932237--40932392	58	2.7	57	78	7	147	21	16	10	51	1.75
40932354--40932417	28	2.3	28	83	2	76	26	15	9	48	1.75
40933367--40933456	37	2.4	36	81	7	101	28	6	20	44	1.76
40934445--40934506	20	3.1	20	85	0	79	48	8	8	35	1.62
40934445--40934532	40	2.2	40	82	8	99	47	10	9	32	1.69
40935736--40935783	25	1.9	25	83	8	62	29	10	31	29	1.90
40941491--40941530	18	2.0	21	86	13	59	62	0	2	35	1.09
40941950--40941985	16	2.3	16	90	4	56	25	30	0	44	1.54
40944691--40944875	101	1.8	102	89	5	295	23	17	27	31	1.97
40944687--40944873	51	3.7	49	76	9	198	24	17	27	31	1.97
40944797--40944877	26	3.2	26	62	28	64	23	14	28	33	1.94
40947603--40947714	50	2.3	50	96	1	208	46	24	7	22	1.76
40948289--40948365	20	3.8	20	77	3	73	38	22	25	12	1.90
40949308--40949366	21	2.8	20	80	14	57	55	3	0	40	1.16
40949349--40949488	11	12.4	11	70	18	83	60	0	2	37	1.09
40949339--40949504	37	4.3	37	92	6	269	62	0	1	35	1.06
40949416--40949477	29	2.1	29	85	5	81	62	0	3	33	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40949358--40949517	17	8.8	17	68	21	83	60	0	1	37	1.08
40949475--40949517	16	2.6	16	81	3	50	62	0	0	37	0.95
40950700--40950735	12	3.1	12	96	4	65	16	19	8	55	1.66
40951439--40951471	12	2.7	13	86	13	52	39	9	3	48	1.50
40951699--40951758	29	2.0	30	90	3	95	46	13	6	33	1.69
40953149--40953173	5	5.0	5	100	0	50	20	0	0	80	0.72
40954306--40954361	24	2.3	24	84	6	69	28	5	5	60	1.41
40966031--40966440	27	15.2	27	83	1	455	41	20	17	19	1.90
40966835--40966901	29	2.2	31	86	7	93	28	14	14	41	1.86
40978543--40978601	21	2.8	20	80	14	57	54	3	1	40	1.27
40978583--40978687	11	10.4	11	72	23	81	55	0	4	40	1.21
40978574--40978716	39	3.6	39	92	0	214	58	0	4	37	1.17
40978673--40978733	29	2.2	29	91	5	99	68	0	1	29	0.99
40978584--40978733	78	1.9	78	87	2	221	59	0	4	36	1.16
40979206--40979240	17	2.1	17	88	0	52	40	2	0	57	1.14
40981898--40981936	18	2.2	18	86	4	53	56	7	23	12	1.62
40984787--40984822	15	2.3	15	90	4	54	27	8	13	50	1.71
40987794--40987885	45	2.0	47	93	4	161	43	16	6	33	1.73
40987794--40987868	25	3.2	25	76	18	97	44	17	8	30	1.77
40987812--40987881	20	3.2	20	70	18	68	44	14	5	35	1.69
40988235--40988269	16	2.2	16	100	0	70	25	28	20	25	1.99
40988252--40988360	41	2.7	41	83	0	128	29	22	20	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40991295--40991447	27	5.7	27	82	1	173	47	22	11	17	1.80
40991295--40991445	81	1.9	81	87	2	223	48	21	11	17	1.80
40991630--40991683	26	2.1	26	92	0	90	18	24	24	33	1.97
40991791--40991854	28	2.3	28	83	0	74	23	20	21	34	1.97
40995906--40995948	17	2.4	18	84	7	52	0	23	6	69	1.12
40997766--40997844	9	8.6	9	84	5	104	39	26	8	25	1.85
41000856--41000988	62	2.3	57	85	8	178	40	2	3	53	1.31
41000871--41000987	58	2.0	62	88	6	179	41	2	3	52	1.32
41002100--41002151	9	5.6	9	80	8	59	44	28	5	21	1.75
41002098--41002151	20	2.8	20	86	5	76	46	27	5	20	1.73

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