genome.fa.s17.2.7.7.80.10.50.1000.136.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  136  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)
42143724--42143778	16	3.4	16	89	0	83	36	7	27	29	1.84
42143927--42143955	6	4.8	6	100	0	58	17	0	13	68	1.20
42143969--42144094	58	2.2	58	79	2	137	53	2	0	43	1.19
42146441--42146675	126	1.9	126	84	3	321	42	12	16	28	1.85
42149733--42149789	25	2.3	23	78	18	62	52	5	0	42	1.24
42150016--42150070	24	2.3	24	96	0	101	16	21	34	27	1.95
42150238--42150275	18	2.1	18	90	0	58	42	10	23	23	1.85
42152026--42152086	32	1.9	32	83	6	79	39	1	27	31	1.66
42160762--42160797	18	1.9	19	88	5	56	80	11	0	8	0.90
42160842--42160891	20	2.5	20	87	6	66	82	0	18	0	0.68
42160836--42160892	26	2.2	24	84	9	69	78	0	19	1	0.83
42160830--42160891	6	9.7	6	81	16	54	79	0	17	3	0.87
42160842--42160891	7	7.4	7	82	8	59	82	0	18	0	0.68
42160860--42160891	13	2.3	15	84	15	50	87	0	12	0	0.54
42161211--42161240	15	2.0	15	93	0	51	56	10	13	20	1.65
42161749--42161789	7	6.0	7	88	5	66	68	2	14	14	1.32
42162832--42162881	21	2.4	21	89	0	73	36	18	44	2	1.61
42163201--42163428	43	5.3	43	84	2	278	32	19	25	22	1.98
42172601--42172641	21	2.0	21	85	0	55	19	31	12	36	1.89
42177583--42177618	17	2.1	17	89	5	54	66	0	11	22	1.22
42180309--42180360	19	2.8	18	83	13	61	53	3	0	42	1.19
42185677--42185793	41	2.9	41	87	3	141	35	29	18	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42185692--42185823	38	3.4	38	86	5	149	35	31	18	13	1.90
42187245--42187278	3	11.3	3	100	0	68	0	0	32	67	0.91
42200610--42200640	16	1.9	16	100	0	62	32	6	38	22	1.80
42200867--42200908	15	2.7	16	82	14	52	52	2	0	45	1.13
42200876--42200917	15	2.9	15	82	10	52	52	0	0	47	1.00
42200865--42201401	120	4.5	120	95	0	925	49	5	2	42	1.39
42201127--42201161	18	2.0	17	88	5	52	54	0	0	45	0.99
42201247--42201281	18	2.0	17	88	5	52	54	0	0	45	0.99
42205380--42205449	29	2.5	28	75	9	70	67	4	1	27	1.18
42215154--42215198	19	2.4	19	88	0	63	26	13	20	40	1.89
42215163--42215201	19	2.1	19	95	0	69	25	17	12	43	1.85
42237030--42237064	18	1.9	18	88	0	52	34	37	0	28	1.58
42241492--42241668	88	2.0	88	93	2	302	27	25	10	36	1.88
42245881--42245962	10	7.6	10	80	15	74	53	9	1	35	1.42
42249333--42249376	23	1.9	22	82	17	54	36	25	0	38	1.56
42249475--42249660	51	3.7	50	80	4	221	32	26	15	25	1.96
42249471--42249657	101	1.8	101	86	3	268	32	26	15	25	1.95
42252077--42252105	13	2.3	13	94	5	51	10	48	0	41	1.37
42255341--42255399	26	2.3	26	93	0	100	42	13	13	30	1.83
42255341--42255413	26	2.8	26	87	0	83	42	10	16	30	1.82
42263168--42263302	40	3.4	39	74	7	121	31	23	18	25	1.97
42264163--42264198	17	2.1	18	89	5	56	5	16	5	72	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42264189--42264233	16	2.6	18	80	13	51	13	15	4	66	1.39
42265689--42265764	26	2.9	26	80	3	82	39	11	15	32	1.84
42270539--42270580	22	1.9	22	90	0	66	9	19	28	42	1.82
42270565--42270725	42	3.8	41	76	13	139	26	30	17	26	1.97
42271046--42271137	21	4.4	21	87	2	114	5	43	15	35	1.69
42271149--42271294	66	2.2	66	82	4	179	17	25	17	39	1.91
42276729--42276772	16	2.8	16	85	0	61	36	0	15	47	1.46
42276740--42276879	25	5.7	25	70	9	99	36	1	18	43	1.59
42276797--42276945	9	17.7	9	70	15	104	37	1	18	42	1.59
42276799--42276945	16	8.8	16	75	14	104	37	1	19	42	1.60
42276799--42276945	34	4.4	31	75	11	114	37	1	19	42	1.60
42276933--42277456	56	9.2	56	94	1	859	40	2	10	46	1.52
42277022--42277066	22	2.0	22	95	0	81	42	0	11	46	1.39
42277134--42277178	22	2.0	22	95	0	81	42	0	11	46	1.39
42277392--42277444	18	3.2	18	65	25	53	39	3	7	49	1.49
42277184--42277458	31	9.4	32	70	18	197	38	2	11	47	1.53
42280306--42280375	35	2.0	36	86	8	99	35	0	7	57	1.26
42280538--42280577	7	5.4	7	85	8	53	27	50	0	22	1.50
42280520--42280577	15	3.9	15	76	13	57	31	50	0	18	1.48
42280713--42280784	37	1.9	38	88	2	110	36	40	1	22	1.63
42282089--42282126	15	2.5	15	86	0	58	36	42	0	21	1.53
42282600--42282920	41	7.8	42	80	4	151	33	24	25	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42282640--42282919	82	3.4	82	78	2	233	32	24	25	17	1.96
42282615--42282919	123	2.5	122	78	4	292	34	24	24	16	1.96
42282999--42283074	40	1.9	40	86	5	109	14	30	25	30	1.95
42295088--42295132	22	2.0	23	86	4	65	55	0	2	42	1.12
42295180--42295216	17	2.1	18	85	14	51	59	0	0	40	0.97
42296396--42296460	19	3.4	18	76	15	60	69	1	1	27	1.07
42304877--42304918	13	3.1	14	83	10	52	50	0	0	50	1.00
42304875--42304916	14	2.9	15	79	17	52	52	0	0	47	1.00
42311858--42311899	21	2.0	21	95	0	75	26	38	26	9	1.87
42312475--42312525	26	2.0	26	100	0	102	27	27	7	37	1.84
42317112--42317161	26	1.9	26	87	4	66	54	0	0	46	1.00
42317285--42317315	16	1.9	16	93	0	53	58	9	9	22	1.59
42320504--42320709	90	2.3	91	85	3	272	45	3	3	47	1.38
42320543--42320684	44	3.2	43	69	16	110	44	2	2	50	1.31
42320763--42321095	66	5.4	64	66	22	226	41	3	6	48	1.47
42320857--42320904	15	3.3	15	83	11	57	43	0	2	54	1.12
42320972--42321023	15	3.6	15	80	12	56	44	0	1	53	1.11
42320725--42321139	120	3.4	120	92	4	694	42	3	5	49	1.42
42321101--42321142	15	2.7	16	82	14	52	45	0	2	52	1.13
42321092--42321133	15	2.9	15	82	10	52	47	0	0	52	1.00
42321076--42321392	157	2.0	157	96	0	589	47	4	3	44	1.40
42321245--42321279	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42321077--42321315	75	3.1	75	64	18	191	46	3	3	46	1.35
42321516--42321551	16	2.2	16	95	0	63	38	27	0	33	1.57
42323233--42323265	16	2.1	16	94	0	57	33	0	36	30	1.58
42323212--42323252	21	2.0	21	95	0	73	26	0	39	34	1.57
42323244--42323338	45	2.1	44	88	1	136	34	5	27	32	1.79
42323500--42323534	18	2.0	17	88	5	52	54	0	0	45	0.99
42323458--42323530	27	2.7	27	76	8	76	52	2	0	45	1.15
42323419--42323690	144	1.9	147	94	3	487	46	3	2	47	1.34
42323644--42323678	18	2.0	17	88	5	52	54	0	0	45	0.99
42323664--42323842	55	3.1	54	64	22	128	49	7	2	41	1.43
42323659--42323846	61	3.1	61	68	14	190	49	6	2	41	1.41
42323627--42323849	120	1.9	120	97	0	419	49	6	2	42	1.40
42323764--42323798	18	2.0	17	88	5	52	60	0	0	40	0.97
42323839--42323885	17	2.9	16	78	18	53	46	2	6	44	1.40
42323858--42323891	17	2.0	17	94	0	59	50	0	5	44	1.26
42323924--42324118	93	2.1	92	87	4	277	46	4	4	44	1.43
42335373--42335457	43	2.0	43	86	4	118	11	5	14	68	1.38
42336608--42336641	5	6.6	5	96	3	59	0	58	41	0	0.98
42340279--42340324	21	2.2	21	84	7	58	26	2	21	50	1.60
42342575--42342712	40	3.5	40	95	0	249	30	21	21	26	1.98
42374072--42374120	16	2.9	16	78	6	53	59	2	0	38	1.09
42376633--42376670	14	2.7	14	84	12	51	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42376679--42376728	16	3.2	16	70	18	52	52	0	0	48	1.00
42377821--42377914	41	2.3	41	96	1	170	50	17	8	24	1.73
42381077--42381144	34	2.0	34	91	0	109	38	10	29	22	1.87
42382141--42382208	34	2.0	34	94	0	118	38	10	30	20	1.86
42383205--42383272	34	2.0	34	91	0	109	36	11	32	19	1.88
42384269--42384336	34	2.0	34	94	0	118	38	11	30	19	1.87
42386398--42386465	34	2.0	34	88	5	102	38	8	29	23	1.85
42387459--42387526	34	2.0	34	88	0	100	38	10	29	22	1.87
42388999--42389039	21	1.9	22	95	5	75	58	14	9	17	1.62
42389164--42389198	17	2.1	17	100	0	70	37	11	17	34	1.85

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