genome.fa.s26.2.7.7.80.10.50.1000.130.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  130  of  221  ( 26413 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)
40030911--40030997	43	2.0	43	100	0	174	36	9	13	40	1.77
40031662--40031707	19	2.5	19	86	10	60	39	6	2	52	1.40
40031985--40032029	19	2.3	20	85	11	58	31	4	2	62	1.27
40037250--40037290	22	1.9	21	85	5	55	12	17	9	60	1.57
40043918--40043977	28	2.2	27	78	3	66	30	15	25	30	1.95
40044141--40044258	27	4.4	26	80	9	94	38	13	25	22	1.91
40050748--40050797	25	2.0	25	100	0	100	32	20	8	40	1.81
40071491--40071532	19	2.2	19	87	8	59	9	7	9	73	1.24
40078321--40078359	20	2.0	20	84	0	51	53	5	23	17	1.63
40079430--40079465	6	6.0	6	86	0	54	44	16	22	16	1.86
40079433--40079465	12	2.8	12	100	0	66	45	15	24	15	1.84
40082091--40082120	15	2.0	15	100	0	60	33	6	6	53	1.53
40084041--40084098	3	19.7	3	92	3	100	68	0	29	1	0.99
40084161--40084245	3	28.7	3	97	2	163	68	0	31	0	0.90
40103044--40103084	20	2.0	20	90	0	64	31	14	19	34	1.92
40145241--40145315	29	2.6	29	89	4	116	28	13	21	37	1.91
40145583--40145635	11	4.7	12	71	19	51	28	24	1	45	1.64
40145581--40145635	23	2.5	22	79	5	65	27	25	1	45	1.64
40145597--40145694	51	1.9	51	85	4	135	26	22	4	46	1.69
40147473--40147512	18	2.2	18	90	0	62	20	30	5	45	1.72
40147770--40147816	21	2.2	21	85	7	60	36	36	25	2	1.68
40148107--40148208	22	4.7	22	87	3	145	44	30	0	25	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40148104--40148133	15	2.0	15	93	0	51	50	33	0	16	1.46
40148065--40148128	15	4.5	15	71	11	62	45	31	1	21	1.62
40148058--40148208	64	2.4	65	85	2	189	44	29	0	25	1.59
40148108--40148208	43	2.3	43	89	0	157	43	30	0	25	1.55
40151355--40151919	125	4.5	124	81	5	622	30	21	16	30	1.96
40162340--40162372	4	8.2	4	100	0	66	24	75	0	0	0.80
40165356--40165395	16	2.5	15	84	11	53	72	0	17	10	1.11
40167247--40167320	30	2.6	27	72	12	76	21	5	25	47	1.72
40168980--40169008	12	2.4	12	100	0	58	24	6	20	48	1.74
40168992--40169043	23	2.3	23	93	0	86	30	7	13	48	1.71
40171870--40171929	30	2.0	30	100	0	120	33	13	20	33	1.91
40172634--40172672	17	2.3	17	86	8	53	46	0	0	53	1.00
40182072--40182127	6	9.5	6	88	3	87	80	3	0	16	0.85
40200164--40200195	16	2.0	16	93	0	55	25	15	0	59	1.36
40200419--40200610	50	3.8	49	77	11	210	31	27	16	23	1.96
40200416--40200599	101	1.8	100	87	3	246	30	27	17	24	1.97
40202676--40202709	17	2.1	17	88	5	52	55	0	0	44	0.99
40205093--40205288	43	4.6	43	86	1	252	29	33	14	21	1.94
40207184--40207227	22	2.0	22	100	0	88	40	18	9	31	1.81
40209727--40210020	146	2.0	147	89	3	450	31	12	14	41	1.83
40210831--40210875	7	6.4	7	100	0	90	44	55	0	0	0.99
40211133--40211165	15	2.3	15	89	5	50	33	33	3	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40211583--40211735	41	3.8	40	80	5	164	32	28	20	17	1.96
40211569--40211769	81	2.5	82	86	0	269	31	27	20	20	1.97
40211624--40211761	41	3.4	39	74	11	109	34	26	18	20	1.96
40211642--40211769	41	3.1	39	73	10	114	32	25	19	22	1.98
40221355--40221416	26	2.3	27	78	13	65	46	1	6	45	1.38
40224665--40224758	43	2.2	43	86	0	134	43	22	12	21	1.86
40225324--40225350	9	3.0	9	100	0	54	33	0	0	66	0.92
40235440--40235664	46	5.3	44	86	8	185	36	14	20	28	1.92
40235373--40235589	46	4.6	48	84	8	234	35	13	21	29	1.92
40235553--40235662	37	3.0	37	94	1	195	37	16	21	24	1.93
40236917--40237060	49	2.9	49	91	1	225	23	15	29	30	1.96
40240256--40240480	46	5.3	44	86	8	185	36	14	20	28	1.92
40240189--40240405	46	4.6	48	84	8	234	35	13	21	29	1.92
40240369--40240478	37	3.0	37	94	1	195	37	16	21	24	1.93
40242301--40242359	6	9.7	6	85	3	64	67	13	6	11	1.40
40242297--40242360	31	2.1	31	91	5	103	68	12	7	10	1.38
40243427--40243503	38	2.0	38	100	0	154	27	7	28	36	1.85
40244444--40244474	13	2.4	13	100	0	62	77	0	0	22	0.77
40244607--40244833	44	5.2	42	68	6	121	27	25	22	24	2.00
40244593--40245578	88	11.2	87	84	3	1102	27	25	24	22	2.00
40244602--40245578	264	3.7	265	84	2	1304	27	25	24	22	2.00
40245311--40245542	44	5.3	43	64	10	110	24	27	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40245559--40246211	128	5.1	128	95	0	1171	31	19	24	24	1.98
40247929--40247978	24	2.1	24	81	7	57	26	10	4	60	1.47
40260385--40260418	7	5.1	7	92	7	54	14	23	0	61	1.33
40261748--40261941	96	2.0	97	95	1	354	38	30	9	21	1.86
40264057--40264089	17	1.9	17	100	0	66	24	27	6	42	1.78
40265775--40265880	37	2.9	37	91	2	171	24	22	16	35	1.95
40265843--40266013	46	3.6	46	84	9	234	28	22	14	34	1.94
40265886--40265999	52	2.2	52	87	4	158	28	22	12	35	1.91
40269776--40269808	17	1.9	17	93	0	57	24	24	6	45	1.75
40276425--40276460	6	6.2	6	93	6	65	16	0	0	83	0.65
40276425--40276459	17	2.1	17	100	0	70	17	0	0	82	0.66
40318069--40318279	97	2.2	96	85	3	273	41	2	17	38	1.64
40318865--40318907	18	2.4	18	88	0	59	44	9	27	18	1.80
40319562--40319587	7	3.7	7	100	0	52	57	15	0	26	1.38
40323728--40323774	23	2.0	23	91	0	76	14	25	10	48	1.76
40330403--40330427	12	2.1	12	100	0	50	28	32	16	24	1.96
40330528--40330591	21	3.0	21	79	2	74	20	28	17	34	1.95
40333431--40333499	16	4.2	16	92	3	120	23	0	39	37	1.55
40333431--40333499	33	2.1	32	94	2	120	23	0	39	37	1.55
40333480--40333570	45	2.0	45	85	2	121	27	6	28	37	1.82
40333735--40333769	18	2.0	17	88	5	52	54	0	0	45	0.99
40333833--40333884	15	3.6	15	80	12	56	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40333718--40334006	119	2.4	121	93	1	494	49	5	2	42	1.39
40333958--40334022	28	2.4	27	72	23	64	53	0	1	44	1.09
40333950--40334212	91	2.7	98	76	14	272	49	3	2	44	1.33
40334050--40334110	28	2.2	28	85	5	81	50	3	0	45	1.17
40334057--40334200	47	3.1	46	65	23	113	49	4	2	44	1.33
40334025--40334232	91	2.3	90	90	4	326	46	4	3	45	1.39
40334050--40334192	44	3.2	43	68	16	119	48	3	2	46	1.31
40334075--40334213	47	3.0	47	68	17	137	49	4	2	43	1.34
40336413--40336634	104	2.1	104	85	1	293	40	16	11	31	1.84
40340649--40340687	20	2.0	20	90	10	62	28	12	33	25	1.93
40342632--40342673	22	1.9	22	90	0	66	38	0	16	45	1.48
40346100--40346330	63	3.7	63	82	5	272	44	15	4	35	1.67
40347918--40347983	26	2.5	27	75	5	71	13	40	3	42	1.60
40350664--40350699	17	2.1	17	89	5	54	19	2	11	66	1.35
40354265--40354307	21	2.0	21	86	8	61	34	0	6	58	1.25
40354290--40354365	35	2.2	34	84	9	93	43	2	5	48	1.39
40354373--40354424	24	2.2	24	100	0	104	32	3	3	59	1.33
40354534--40354619	43	2.0	43	82	13	104	40	26	2	30	1.68
40374346--40374425	40	2.0	40	82	0	97	15	38	20	26	1.91
40378897--40378936	21	1.9	21	94	0	71	22	32	7	37	1.82
40380378--40380521	66	2.2	66	87	3	200	42	19	23	14	1.88
40380797--40380893	44	2.2	44	85	7	126	31	27	14	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40382918--40382964	23	2.0	23	83	0	58	59	4	2	34	1.29
40383018--40383073	17	3.5	16	79	20	64	67	1	0	30	1.01
40383123--40383163	19	2.1	20	95	4	75	68	9	0	21	1.18
40385028--40385085	30	1.9	30	89	0	89	39	0	41	18	1.51
40385378--40385408	9	3.4	9	90	0	53	38	22	12	25	1.90
40387871--40387895	11	2.3	11	100	0	50	52	0	8	40	1.31
40387968--40388002	17	2.0	17	88	5	52	48	2	0	48	1.16
40396405--40396437	15	2.2	15	94	0	57	48	3	12	36	1.56
40425976--40426079	26	4.0	26	100	0	208	26	15	26	30	1.96
40429162--40429199	18	2.1	18	90	0	58	39	13	26	21	1.89

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