genome.fa.s17.2.7.7.80.10.50.1000.57.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  57  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)
16336096--16336137	15	2.7	15	88	3	57	4	19	2	73	1.12
16336147--16336224	5	15.6	5	77	18	74	57	3	0	38	1.17
16336149--16336228	24	3.3	25	79	11	87	57	3	0	38	1.17
16336147--16336196	19	2.5	19	87	12	66	58	0	0	42	0.98
16338109--16338136	13	2.2	13	100	0	56	46	25	7	21	1.76
16340580--16340828	50	4.8	50	85	4	284	20	29	24	26	1.99
16340579--16340828	100	2.4	104	88	6	357	20	29	24	26	1.99
16340923--16340954	13	2.5	13	94	0	55	56	12	0	31	1.37
16341166--16341223	30	1.9	30	89	0	89	31	24	3	41	1.71
16341781--16341822	15	2.7	15	88	3	57	4	19	2	73	1.12
16341831--16341902	5	14.4	5	75	20	62	56	4	0	38	1.18
16341832--16341874	19	2.3	19	92	8	70	58	0	0	41	0.98
16341838--16341903	24	2.7	25	81	9	73	59	4	0	36	1.18
16344725--16344780	28	2.0	28	100	0	112	42	10	10	35	1.74
16349066--16349143	30	2.6	29	76	11	79	46	3	24	25	1.70
16358900--16359003	34	3.0	34	79	8	86	52	2	1	42	1.27
16367985--16368022	18	2.1	18	100	0	76	26	23	28	21	1.99
16368882--16368935	15	3.8	15	76	14	60	57	3	0	38	1.17
16368871--16368924	27	2.0	27	89	7	83	59	1	0	38	1.08
16368877--16368941	28	2.3	28	81	5	78	58	3	0	38	1.14
16372801--16372897	42	2.3	43	81	1	115	27	17	23	30	1.97
16372756--16372914	43	3.7	43	76	9	146	23	17	27	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16373832--16373859	13	2.2	13	100	0	56	35	0	17	46	1.49
16374773--16374803	16	1.9	16	100	0	62	58	19	22	0	1.40
16377276--16377314	7	5.7	7	93	3	62	30	30	10	28	1.90
16377443--16377561	59	2.0	59	100	0	238	15	29	23	31	1.95
16381813--16381840	6	4.7	6	100	0	56	32	17	0	50	1.47
16384142--16384170	14	2.1	14	93	6	51	13	3	0	82	0.79
16388897--16388976	31	2.5	32	84	9	94	38	13	0	47	1.43
16397172--16397231	31	1.9	31	100	0	120	20	23	11	45	1.83
16400592--16400666	25	3.0	26	76	16	70	20	25	17	37	1.94
16400576--16400688	50	2.3	50	78	14	119	19	24	18	37	1.94
16406347--16406442	9	10.2	9	78	5	84	40	1	4	54	1.27
16406337--16406443	5	22.4	5	76	13	57	40	0	3	55	1.24
16406347--16406438	19	4.9	18	77	9	94	40	1	4	54	1.27
16409569--16409635	30	2.2	31	84	5	84	23	20	8	46	1.79
16411504--16411566	31	2.0	31	100	0	126	34	9	9	46	1.69
16418820--16418895	36	2.1	36	92	0	125	26	5	32	35	1.79
16434586--16434622	18	2.1	18	100	0	74	29	27	16	27	1.97
16435416--16435562	72	2.1	71	93	1	249	28	13	16	41	1.86
16439270--16439294	13	1.9	13	100	0	50	8	0	24	68	1.16
16441138--16441241	41	2.5	41	89	3	156	27	21	29	21	1.98
16449505--16449615	55	2.0	55	100	0	222	32	20	10	36	1.87
16459097--16459381	44	6.6	43	67	15	140	26	25	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16459018--16459212	87	2.2	87	79	6	189	24	23	23	29	1.99
16460524--16460566	22	1.9	23	90	4	70	16	13	0	69	1.19
16460524--16460572	23	2.1	23	85	7	64	18	16	0	65	1.28
16473114--16473142	15	1.9	15	100	0	58	6	27	27	37	1.82
16475641--16475683	19	2.3	19	100	0	86	55	0	32	11	1.36
16475691--16475725	10	3.5	10	88	11	54	60	0	8	31	1.27
16480517--16480559	2	21.5	2	100	0	86	48	51	0	0	1.00
16480559--16480613	2	27.5	2	100	0	110	0	50	0	49	1.00
16490141--16490171	6	5.2	6	100	0	62	67	0	16	16	1.23
16490144--16490192	12	3.8	13	86	7	55	77	0	8	14	0.98
16490162--16490194	7	4.7	7	96	0	57	81	0	3	15	0.80
16491198--16491241	6	7.0	6	85	10	61	0	50	0	50	1.00
16492780--16492892	56	2.0	56	98	0	217	22	13	15	48	1.80
16493491--16493562	33	2.2	34	82	9	96	48	13	6	30	1.69
16496959--16496991	17	1.9	17	88	11	50	78	9	12	0	0.95
16497819--16498001	50	3.7	50	80	2	197	25	18	21	34	1.96
16497822--16498031	100	2.1	100	87	0	294	26	19	20	33	1.96
16498023--16498426	219	1.8	219	91	0	673	29	20	17	32	1.96
16498440--16498691	129	2.0	129	94	0	441	24	22	19	33	1.97
16499910--16499953	7	6.1	7	82	12	54	11	15	0	72	1.11
16500802--16500847	8	5.2	9	82	10	51	2	21	0	76	0.90
16500802--16500847	18	2.6	17	83	6	56	2	21	0	76	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16500886--16500919	18	1.9	18	88	5	52	5	2	14	76	1.09
16509174--16509212	18	2.2	17	86	13	53	33	0	20	46	1.51
16509438--16509536	23	4.3	23	88	5	155	23	21	25	30	1.99
16516807--16516879	23	3.2	23	92	0	128	26	21	23	28	1.99
16538277--16538318	19	2.2	20	82	4	50	30	7	11	50	1.66
16549290--16550095	216	3.7	216	91	1	1251	28	20	24	27	1.99
16549294--16550062	44	17.8	43	68	13	305	27	20	23	27	1.99
16550356--16550383	14	2.0	14	100	0	56	50	28	14	7	1.69
16562612--16562686	31	2.4	31	95	0	132	36	2	4	57	1.32
16562636--16562686	16	3.2	16	73	15	61	35	1	1	60	1.19
16572563--16572600	9	4.2	9	83	12	51	65	0	0	34	0.93
16572800--16572851	21	2.5	20	72	9	50	38	0	0	61	0.96
16575513--16575702	54	3.5	54	86	0	256	26	20	15	37	1.92
16575445--16575702	107	2.4	108	82	3	297	27	20	15	37	1.92
16575445--16575702	54	4.8	54	80	1	250	27	20	15	37	1.92
16575445--16575755	54	5.8	53	76	7	220	27	20	14	36	1.92
16575547--16575748	108	1.9	107	81	7	248	27	21	13	37	1.91
16576071--16576371	24	12.5	24	75	4	221	26	19	13	40	1.89
16576045--16576205	48	3.3	48	82	1	196	24	16	14	43	1.86
16579555--16579636	38	2.1	39	86	2	112	29	10	8	51	1.67
16584738--16584779	13	2.9	14	80	13	50	54	0	0	45	0.99
16584742--16584778	16	2.3	16	86	13	58	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16595739--16595789	24	2.1	24	96	0	93	43	7	1	47	1.43
16596153--16596258	9	11.4	9	68	16	65	33	0	0	65	1.06
16596154--16596233	29	2.8	28	81	12	99	37	1	0	61	1.04
16597406--16597445	20	2.0	20	90	4	64	35	0	0	65	0.93
16597412--16597468	28	2.0	28	86	0	78	31	0	0	68	0.90
16597901--16597927	8	3.4	8	100	0	54	11	0	0	88	0.50
16598194--16598232	20	2.0	20	94	0	69	64	0	2	33	1.08
16604590--16604659	22	3.2	23	86	11	94	34	27	1	37	1.66
16604599--16604660	22	2.8	23	92	4	101	35	25	1	37	1.66
16604631--16604689	30	2.0	30	93	0	100	32	33	0	33	1.58
16604661--16604702	22	1.9	22	90	0	66	33	33	0	33	1.58
16604748--16604808	29	2.1	29	84	6	79	37	0	1	60	1.07
16604899--16604932	15	2.3	15	90	5	52	26	0	5	67	1.13
16609713--16609767	3	18.3	3	100	0	110	32	0	0	67	0.91
16609957--16610011	27	2.0	27	100	0	110	43	23	3	29	1.71
16611540--16611584	15	3.0	14	81	12	54	31	13	0	55	1.38
16618010--16618091	35	2.3	36	89	2	121	42	32	12	12	1.79
16618788--16618830	22	2.0	22	86	8	63	53	16	2	27	1.55
16619140--16619184	23	2.0	23	81	0	54	35	17	2	44	1.62
16626153--16626195	18	2.4	18	84	0	50	30	27	13	27	1.95
16626164--16626232	27	2.6	27	85	0	93	31	26	14	27	1.95
16626190--16626231	18	2.3	18	88	8	59	30	30	14	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16627570--16627605	17	2.1	17	94	0	63	50	5	0	44	1.25
16641104--16641138	14	2.6	14	90	4	54	34	5	5	54	1.48
16641228--16641513	58	4.9	58	83	2	322	39	13	13	33	1.85
16641238--16641515	117	2.4	117	80	2	308	39	14	13	32	1.85
16641590--16642208	70	8.8	70	79	4	620	30	17	21	30	1.96
16644794--16644949	70	2.2	70	89	2	242	30	19	22	28	1.98
16647894--16647932	18	2.2	18	86	9	53	43	0	0	56	0.99
16647894--16647933	17	2.3	17	86	4	53	45	0	0	55	0.99
16655663--16655775	56	2.0	56	100	0	226	22	15	12	49	1.78
16660332--16660372	10	4.4	10	84	9	52	41	0	0	58	0.98

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