genome.fa.s15.2.7.7.80.10.50.1000.122.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   222   

This is table  122  of  222  ( 26535 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)
39600653--39600788	74	1.9	72	90	3	218	52	9	16	21	1.71
39600722--39600848	60	2.1	60	89	4	191	51	8	17	22	1.72
39605105--39605246	43	3.3	43	86	1	160	32	22	17	27	1.96
39610994--39611136	49	2.9	49	86	3	189	32	20	22	24	1.98
39611009--39611130	25	4.9	25	78	12	126	31	20	23	24	1.98
39611060--39611141	24	3.3	23	79	12	76	36	20	20	21	1.95
39616230--39616254	2	12.5	2	100	0	50	52	0	0	48	1.00
39650144--39650241	39	2.5	39	90	3	153	61	4	8	26	1.42
39655408--39655444	14	2.6	14	86	0	56	13	13	21	51	1.75
39661893--39661994	37	2.7	37	83	7	127	32	16	16	34	1.92
39665791--39665975	79	2.3	82	85	7	238	25	27	22	24	2.00
39665772--39665975	40	5.1	40	83	8	238	25	27	22	25	2.00
39667101--39667220	56	2.1	56	98	0	231	22	23	9	45	1.81
39673021--39673205	79	2.3	82	82	7	211	25	27	21	25	1.99
39673021--39673205	40	4.7	40	82	6	198	25	27	21	25	1.99
39674332--39674451	56	2.1	56	98	0	231	22	23	9	45	1.81
39675454--39675551	21	4.7	21	84	1	126	40	18	27	13	1.88
39680437--39680501	32	2.0	32	100	0	130	27	33	13	24	1.93
39683327--39683507	40	4.6	40	82	6	208	25	27	21	25	1.99
39683327--39683507	79	2.3	81	81	7	210	25	27	21	25	1.99
39691331--39691554	79	2.8	79	85	6	292	25	27	22	24	2.00
39691331--39691554	40	5.7	40	87	6	280	25	27	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39694010--39694052	21	2.0	21	95	0	77	41	18	25	13	1.88
39701774--39701818	10	4.5	10	89	10	74	20	0	0	80	0.72
39703079--39703240	71	2.3	71	83	0	216	41	13	13	30	1.83
39703124--39703178	24	2.3	24	77	0	65	40	9	14	36	1.78
39716759--39717229	44	10.7	44	89	0	636	28	22	27	21	1.99
39720526--39720765	54	4.4	54	83	2	284	38	14	20	26	1.91
39720744--39720966	39	5.7	39	79	2	232	40	19	21	17	1.91
39720939--39721121	54	3.4	54	86	1	233	38	18	20	21	1.93
39720614--39721313	357	2.0	357	82	4	865	40	16	20	21	1.91
39721101--39721508	39	10.5	39	81	2	300	41	13	22	22	1.89
39721095--39721430	117	2.9	117	81	2	361	41	13	23	21	1.89
39721101--39721508	78	5.2	78	80	1	343	41	13	22	22	1.89
39721095--39721469	117	3.2	117	80	1	340	41	13	22	21	1.88
39736083--39736188	41	2.6	41	90	0	167	29	22	27	20	1.99
39738477--39738523	25	1.9	25	86	4	69	36	4	4	55	1.39
39740479--39740516	19	1.9	20	89	10	60	44	0	18	36	1.50
39742431--39742479	18	2.7	18	77	0	62	48	30	8	12	1.69
39743929--39743957	13	2.3	13	94	5	51	31	10	6	51	1.62
39745635--39745659	13	1.9	13	100	0	50	32	8	12	48	1.69
39745693--39745732	19	2.0	20	85	4	55	25	20	7	47	1.75
39747626--39747666	20	2.0	20	90	9	66	17	14	2	65	1.37
39748734--39748833	42	2.4	42	89	0	146	35	11	24	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39748734--39748845	42	2.7	42	87	0	134	33	11	25	29	1.91
39749946--39751228	44	28.2	45	70	10	691	31	17	23	27	1.97
39749946--39751228	89	14.1	89	78	9	1137	31	17	23	27	1.97
39749946--39751228	181	7.1	178	78	8	1241	31	17	23	27	1.97
39751316--39751507	44	4.4	44	68	10	140	30	20	22	26	1.98
39751207--39751506	132	2.3	132	93	0	501	31	19	22	27	1.98
39751594--39751750	44	3.7	44	80	7	164	26	22	23	27	1.99
39754483--39754538	22	2.5	22	80	8	60	41	3	8	46	1.52
39754498--39754551	12	4.5	12	75	9	56	38	3	9	48	1.53
39756939--39756976	10	3.8	10	80	13	51	44	0	0	55	0.99
39756940--39756998	20	3.2	18	88	7	75	33	0	1	64	1.04
39757007--39757058	26	2.0	26	85	7	70	38	0	0	61	0.96
39756948--39757056	57	1.9	57	81	7	132	34	0	0	63	1.07
39756948--39757090	9	15.8	9	68	18	66	32	1	1	65	1.10
39770885--39770942	30	1.9	31	89	3	91	44	1	0	53	1.10
39773484--39773531	25	2.0	24	83	4	60	41	8	8	41	1.65
39773642--39773822	62	2.9	63	86	6	230	46	3	3	46	1.37
39776256--39776558	40	7.6	40	90	2	396	24	20	28	27	1.99
39784246--39784548	40	7.6	40	89	2	387	24	20	27	27	1.99
39789310--39789356	13	3.5	13	82	5	58	31	2	10	55	1.46
39789377--39789426	14	3.8	13	80	17	50	26	0	20	54	1.45
39796981--39797020	20	2.1	19	85	4	53	32	7	12	47	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39807669--39807699	12	2.6	12	94	0	53	70	0	9	19	1.14
39807719--39807752	2	17.0	2	87	0	50	44	0	5	50	1.26
39807778--39807863	32	2.6	32	76	20	88	48	3	10	37	1.55
39808134--39808214	3	27.3	3	75	12	60	58	1	7	33	1.34
39808140--39808193	18	3.2	17	80	17	67	61	1	5	31	1.30
39809289--39809326	15	2.3	17	86	13	53	7	15	57	18	1.62
39816240--39816278	19	2.2	18	86	9	53	12	17	48	20	1.80
39816668--39816719	25	2.0	28	88	11	83	51	3	11	32	1.56
39818617--39818802	41	4.5	41	95	0	327	26	22	27	23	1.99
39820720--39820744	13	1.9	13	100	0	50	40	8	12	40	1.72
39829816--39829883	24	2.9	23	82	6	84	16	33	1	48	1.55
39836174--39836225	26	2.0	26	84	3	68	28	17	23	30	1.97
39838335--39838414	24	3.4	23	86	8	108	17	32	0	50	1.47
39839148--39839193	17	2.6	17	89	6	65	71	2	0	26	0.97
39839149--39839194	18	2.6	18	82	6	58	73	2	0	23	0.94
39840025--39840062	19	2.0	20	90	10	62	39	0	0	60	0.97
39844716--39844756	20	2.0	20	100	0	82	46	29	14	9	1.77
39848999--39849045	18	2.6	18	86	6	60	25	21	27	25	1.99
39852683--39852833	41	3.8	40	76	11	143	22	18	27	31	1.97
39852683--39852790	35	2.9	37	84	8	130	21	20	29	28	1.98
39852683--39852831	76	2.0	76	86	2	210	21	18	28	31	1.97
39853161--39853203	15	2.9	15	89	3	61	30	2	30	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39853195--39853247	21	2.5	21	84	6	63	22	0	39	37	1.54
39858854--39859039	102	1.8	102	96	2	347	41	6	9	41	1.65
39859017--39859113	42	2.3	43	89	3	144	23	8	27	40	1.83
39860232--39860264	15	2.2	15	100	0	66	45	15	21	18	1.85
39872117--39872148	6	5.3	6	100	0	64	34	15	0	50	1.45
39872117--39872152	18	2.0	18	94	0	63	36	13	0	50	1.43
39901652--39901683	6	5.3	6	100	0	64	34	15	0	50	1.45
39901652--39901687	18	2.0	18	94	0	63	36	13	0	50	1.43
39913739--39913775	4	9.2	4	100	0	74	24	0	24	51	1.49
39913802--39913882	23	3.5	23	80	6	101	33	8	19	38	1.83
39913796--39913883	46	1.9	46	92	0	149	30	9	20	39	1.83
39913802--39913893	23	4.0	23	76	8	71	35	8	18	36	1.82
39914077--39914154	31	2.5	31	91	0	120	19	25	11	43	1.84
39914867--39914942	13	5.8	13	77	11	84	34	5	25	35	1.78
39915211--39915237	8	3.4	8	100	0	54	44	0	0	55	0.99
39916064--39916122	31	1.9	31	92	0	100	40	8	6	44	1.61
39916062--39916128	31	2.2	31	86	0	98	37	11	7	43	1.70
39917450--39917499	25	2.0	25	100	0	100	44	4	28	24	1.72
39928535--39928917	47	8.1	47	90	3	540	28	29	8	33	1.87
39928535--39928917	49	8.1	49	89	4	542	28	29	8	33	1.87
39928535--39928917	96	4.1	95	89	3	562	28	29	8	33	1.87
39928535--39928917	145	2.7	145	91	4	615	28	29	8	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39930636--39930813	27	6.6	27	82	3	196	26	14	28	29	1.95
39930637--39930792	82	1.9	81	86	3	224	26	14	28	29	1.95
39930633--39930813	82	2.2	81	82	2	220	27	14	28	29	1.96
39944449--39944497	21	2.3	22	79	10	57	32	16	4	46	1.65
39950755--39950852	27	3.5	28	88	5	128	25	13	28	32	1.93
39950783--39950866	27	3.0	27	87	5	96	29	11	25	33	1.91
39955316--39955375	31	1.9	31	89	0	93	38	13	3	45	1.60
39976908--39976942	18	1.9	18	88	11	54	57	8	2	31	1.44
39978844--39978912	35	2.0	35	100	0	138	39	17	14	28	1.89
39979339--39979396	27	2.2	26	78	9	64	17	22	22	37	1.93

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   222