genome.fa.s25.2.7.7.80.10.50.1000.196.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  196  of  214  ( 25680 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)
57272270--57272310	16	2.4	18	84	12	59	17	0	0	82	0.66
57272272--57272309	17	2.3	17	90	4	60	15	0	0	84	0.63
57272491--57272525	3	11.3	3	93	6	61	31	0	2	65	1.07
57290360--57290411	20	2.5	20	84	6	59	65	5	1	26	1.26
57290956--57290998	17	2.5	17	85	7	52	44	2	0	53	1.13
57291627--57291656	15	2.0	15	93	0	51	36	0	0	63	0.95
57294737--57294774	19	2.0	19	100	0	76	15	36	10	36	1.82
57300387--57300434	25	1.9	25	83	8	62	58	2	6	33	1.35
57303281--57303360	22	3.6	22	94	0	133	17	23	16	42	1.88
57303943--57304002	30	2.0	31	83	3	77	20	41	0	38	1.52
57309669--57309719	23	2.1	25	82	13	63	43	0	5	50	1.26
57309759--57309838	33	2.5	32	84	6	101	45	1	6	47	1.36
57310029--57310063	18	2.0	18	88	5	54	51	0	0	48	1.00
57326350--57326430	31	2.7	30	74	12	76	41	1	3	53	1.27
57333526--57333610	17	5.1	16	67	24	52	32	1	4	61	1.24
57333526--57333610	16	5.1	17	68	26	58	32	1	4	61	1.24
57340243--57340348	55	1.9	56	82	5	135	37	18	3	39	1.69
57345700--57345743	3	14.7	3	95	0	79	0	34	0	65	0.93
57355709--57355776	33	2.1	33	100	0	136	30	0	30	38	1.58
57359154--57359187	9	3.8	9	88	0	50	0	23	35	41	1.55
57363061--57363127	33	2.0	33	94	0	116	46	13	17	22	1.83
57364754--57364799	19	2.5	17	80	16	56	43	2	2	52	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57364879--57364931	20	2.7	19	77	11	54	30	1	3	64	1.22
57365909--57365946	18	2.1	18	85	9	51	21	10	15	52	1.72
57372971--57373015	6	7.5	6	94	0	54	64	6	28	0	1.19
57388375--57388405	15	2.1	15	94	5	55	29	0	0	70	0.87
57388390--57388429	20	2.0	20	85	0	53	52	0	0	47	1.00
57388628--57388668	22	1.9	21	85	5	55	65	14	14	4	1.42
57390642--57390673	12	2.8	12	95	4	57	34	0	0	65	0.93
57399323--57399355	16	2.0	17	88	5	50	72	0	0	27	0.85
57412300--57412932	174	3.7	172	86	5	820	35	9	11	42	1.74
57412896--57414752	201	9.4	201	78	10	1711	37	9	10	42	1.73
57412769--57414467	588	2.9	588	84	4	2113	36	10	11	42	1.74
57413487--57414716	204	6.2	202	78	10	1161	36	9	10	42	1.73
57413489--57414572	396	2.7	388	84	6	1337	36	9	10	43	1.73
57417434--57417471	17	2.1	19	80	14	53	34	2	5	57	1.35
57417436--57417476	18	2.3	18	87	4	57	34	2	4	58	1.32
57417919--57417981	30	2.1	30	90	0	99	57	14	4	23	1.56
57419323--57419412	46	2.0	46	88	0	135	47	5	18	27	1.71
57423478--57423607	64	2.0	64	98	0	251	28	18	16	36	1.93
57428009--57428305	133	2.2	134	84	7	372	30	21	13	34	1.92
57430957--57431003	21	2.2	22	92	3	78	21	38	19	21	1.94
57434427--57434455	3	9.7	3	100	0	58	34	0	0	65	0.93
57434697--57434791	30	3.2	29	68	21	81	36	10	11	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57434686--57434803	58	2.0	58	95	0	209	40	11	9	38	1.73
57434917--57434961	23	1.9	24	81	4	56	46	2	6	44	1.42
57438500--57438533	14	2.4	14	90	9	52	61	0	0	38	0.96
57439416--57439461	25	1.9	23	83	16	58	71	6	0	21	1.08
57444306--57444331	2	13.0	2	100	0	52	0	0	50	50	1.00
57445759--57445803	18	2.5	18	81	0	54	55	0	0	44	0.99
57445746--57445799	24	2.1	27	86	10	78	59	0	0	40	0.98
57457380--57457406	11	2.5	11	100	0	54	55	0	0	44	0.99
57459258--57459354	42	2.3	41	75	5	95	42	15	25	16	1.87
57459283--57459346	21	3.0	21	72	0	56	35	14	29	20	1.92
57462367--57462422	4	14.0	4	100	0	112	50	25	0	25	1.50
57470863--57470909	19	2.6	18	74	16	51	63	2	6	27	1.30
57471573--57471612	17	2.3	18	83	12	57	67	0	5	27	1.11
57471995--57472065	18	3.7	19	69	19	58	23	4	1	70	1.13
57475026--57475074	19	2.5	19	87	9	64	55	8	0	36	1.30
57498683--57498821	42	3.3	41	80	4	152	42	18	23	15	1.89
57498722--57498793	21	3.4	21	67	7	65	43	16	25	15	1.87
57500003--57500042	21	1.9	21	84	0	53	42	12	2	42	1.56
57500553--57500655	51	2.0	51	94	0	179	37	18	8	34	1.82
57500805--57500853	22	2.2	22	96	0	89	16	18	2	63	1.41
57500914--57500968	27	2.0	27	100	0	110	30	21	10	36	1.88
57502859--57502892	17	2.0	17	94	0	59	11	26	5	55	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57507434--57507537	19	5.2	19	71	21	70	57	4	0	36	1.26
57507433--57507477	20	2.2	21	88	4	65	64	4	2	28	1.25
57530033--57530067	6	5.8	6	96	0	52	34	42	17	5	1.73
57543953--57543977	13	1.9	13	100	0	50	56	4	0	40	1.18
57544084--57544144	3	21.3	3	80	12	67	65	1	1	31	1.12
57545401--57546568	132	8.8	132	95	0	2003	29	25	17	27	1.97
57546652--57547187	46	11.8	46	63	14	191	29	22	20	26	1.99
57546578--57547047	134	3.5	134	96	0	832	28	23	21	26	1.99
57546817--57547108	45	6.4	45	63	13	121	28	23	19	28	1.98
57546949--57547144	95	2.0	96	95	1	349	28	22	19	29	1.98
57547135--57547398	86	3.1	86	90	0	402	26	23	22	27	2.00
57547211--57547349	42	3.3	42	62	18	97	24	21	25	28	1.99
57553895--57553919	13	1.9	13	100	0	50	56	4	0	40	1.18
57554025--57554082	3	20.3	3	79	13	52	63	1	3	31	1.21
57556466--57556505	21	1.9	21	94	0	71	32	2	0	65	1.06
57556465--57556512	21	2.3	21	85	0	69	33	2	0	64	1.05
57558090--57558167	34	2.2	36	93	4	133	38	2	17	41	1.64
57559241--57559330	21	4.3	21	81	2	110	16	24	15	43	1.87
57559259--57559356	42	2.3	43	87	5	146	18	23	14	43	1.86
57559241--57559349	21	5.2	21	80	0	83	17	23	15	43	1.87
57559259--57559368	42	2.6	41	81	5	130	19	23	14	42	1.88
57559899--57559936	18	2.1	18	100	0	76	15	21	0	63	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57560741--57560952	50	4.1	51	81	11	259	27	20	30	20	1.98
57560749--57561090	117	3.0	108	80	11	382	27	22	29	20	1.98
57560893--57561019	67	1.9	67	93	0	218	26	21	33	18	1.97
57560960--57561109	50	3.0	50	85	1	192	26	24	30	20	1.98
57564115--57564159	22	2.0	22	86	8	63	71	2	2	24	1.09
57576764--57576819	6	9.3	6	100	0	112	32	0	0	67	0.91
57580299--57580331	11	2.8	12	90	9	59	24	27	6	42	1.78
57580312--57580409	50	1.9	51	83	6	128	26	28	4	40	1.74
57582143--57582185	21	2.0	21	90	0	68	27	39	27	4	1.76
57582432--57582485	22	2.5	22	82	8	67	46	25	0	27	1.53
57582418--57582581	57	3.0	53	81	14	185	45	29	0	24	1.53
57582496--57582691	22	8.0	22	71	23	85	46	28	0	24	1.56
57582517--57582566	15	3.5	15	69	20	52	44	34	0	22	1.53
57582495--57582682	50	3.7	50	75	17	142	46	27	0	25	1.57
57582425--57582591	50	3.1	55	77	10	182	46	29	0	24	1.53
57582425--57582648	28	8.4	28	70	20	135	45	29	0	25	1.54
57582595--57582648	14	3.8	14	80	2	54	44	27	0	27	1.55
57582482--57582691	78	2.8	77	78	13	229	47	28	0	23	1.56
57582629--57582691	23	2.8	23	85	4	85	50	22	1	25	1.58
57585760--57586199	128	3.5	124	85	2	592	28	22	17	31	1.96
57588979--57589039	30	2.0	30	96	0	113	37	8	22	31	1.84
57600840--57601252	125	3.3	125	92	0	691	31	17	19	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57604440--57604544	49	2.3	44	75	15	120	50	6	3	39	1.47
57604456--57604564	49	2.2	49	95	0	191	46	5	3	44	1.44
57604988--57605030	18	2.4	18	88	0	59	44	9	27	18	1.80
57606603--57606667	35	1.9	34	84	12	89	61	3	1	33	1.21
57606819--57606863	22	2.0	22	86	0	63	48	2	26	22	1.62
57612950--57612977	6	4.7	6	100	0	56	53	17	28	0	1.44
57613550--57613579	6	5.0	6	100	0	60	66	33	0	0	0.92
57619902--57619989	37	2.4	37	84	0	113	39	20	14	25	1.90
57624276--57624365	34	2.6	34	81	6	110	36	2	17	43	1.62
57624410--57624749	125	2.7	126	87	1	450	36	18	15	29	1.92

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