genome.fa.s17.2.7.7.80.10.50.1000.34.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  34  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)
9390185--9390352	73	2.3	72	82	3	194	27	20	25	26	1.99
9390251--9390799	114	4.8	114	88	1	769	24	19	28	27	1.98
9390705--9390885	73	2.5	73	86	0	254	23	20	29	26	1.99
9390598--9390935	187	1.8	187	86	2	500	25	20	27	26	1.99
9391171--9391273	14	7.2	14	69	12	66	19	1	31	47	1.60
9391227--9391274	22	2.2	21	81	3	60	20	0	31	47	1.50
9391323--9391363	21	2.0	21	90	0	64	29	0	39	31	1.57
9395717--9395946	43	5.3	43	84	3	275	23	17	30	28	1.97
9396040--9396082	22	2.0	22	90	0	68	46	25	16	11	1.80
9396561--9396613	20	2.7	19	82	8	61	54	3	0	41	1.18
9396667--9396767	43	2.3	43	83	3	114	24	19	27	27	1.99
9409746--9409784	12	3.2	12	77	0	51	17	41	2	38	1.64
9415005--9415034	16	1.9	16	93	6	53	16	10	20	53	1.71
9430973--9431636	114	5.9	114	87	1	933	26	20	27	26	1.99
9431535--9431689	73	2.1	72	84	1	193	30	17	25	26	1.97
9431846--9431894	14	3.4	14	91	2	71	24	0	38	36	1.56
9431861--9431903	7	6.3	7	81	2	52	23	0	39	37	1.55
9432617--9432781	87	1.9	84	87	6	242	48	11	13	26	1.77
9432899--9433758	148	5.8	148	92	0	1418	36	16	16	30	1.91
9432899--9433758	297	2.9	296	94	1	1456	36	16	16	30	1.91
9437202--9437234	12	2.8	12	86	4	50	27	0	9	63	1.24
9437491--9437589	43	2.3	43	87	0	135	20	18	29	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9438609--9438731	50	2.5	50	85	2	158	34	24	18	22	1.96
9438609--9438732	25	5.0	25	80	3	142	33	25	18	22	1.96
9439614--9439692	3	26.3	3	100	0	158	67	0	32	0	0.91
9442168--9442225	25	2.3	27	80	19	72	48	15	3	32	1.62
9456970--9457010	14	2.9	14	82	13	57	65	0	0	34	0.93
9462103--9462152	22	2.2	22	83	16	59	16	22	0	62	1.33
9463274--9463307	16	2.1	16	88	5	50	47	5	14	32	1.69
9466038--9466088	23	2.2	23	82	6	59	56	7	3	31	1.46
9471613--9471686	9	8.0	9	73	16	62	36	0	17	45	1.49
9473490--9473582	18	5.2	18	93	0	159	26	24	17	31	1.97
9473490--9473582	36	2.6	36	98	0	177	26	24	17	31	1.97
9478540--9478575	16	2.2	16	90	9	56	72	5	16	5	1.23
9479088--9479128	18	2.3	18	83	8	57	39	14	36	9	1.79
9479246--9479323	40	2.0	40	89	0	120	11	29	21	37	1.89
9479881--9479905	7	3.6	7	100	0	50	60	40	0	0	0.97
9479878--9479927	14	3.6	14	78	8	57	56	34	0	10	1.33
9479895--9480001	55	1.9	55	85	7	146	49	30	0	19	1.49
9479942--9479983	14	3.0	14	85	0	57	47	26	0	26	1.52
9480046--9480109	28	2.3	27	89	2	92	46	31	1	20	1.60
9480286--9480364	40	2.0	40	82	0	95	25	24	18	31	1.98
9480212--9480687	152	3.1	151	81	5	519	29	20	17	31	1.96
9480449--9480547	40	2.5	40	83	0	126	25	23	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9480602--9480739	40	3.5	40	84	2	161	26	21	23	28	1.99
9485006--9485572	126	4.5	125	85	2	742	30	16	23	30	1.96
9485006--9485572	251	2.3	250	88	2	816	30	16	23	30	1.96
9488747--9490104	21	63.1	21	71	14	468	24	0	30	44	1.59
9488778--9488865	38	2.4	37	81	5	108	22	1	31	44	1.61
9488814--9490096	43	29.7	43	76	10	901	24	0	30	44	1.59
9488969--9489031	8	8.1	8	80	7	67	15	0	30	53	1.42
9489268--9489496	58	3.8	58	78	7	217	24	1	30	43	1.64
9489301--9489374	37	2.0	36	81	2	85	22	1	28	47	1.60
9489433--9489462	16	1.9	16	93	6	53	20	0	33	46	1.51
9489448--9490104	21	29.6	22	77	10	543	24	0	30	44	1.59
9489930--9490038	22	4.4	26	67	31	69	22	0	36	40	1.55
9490650--9490692	18	2.4	18	84	0	59	46	9	27	16	1.77
9491496--9491533	20	1.9	20	84	10	51	55	7	2	34	1.43
9492470--9492567	51	1.9	51	83	8	128	45	3	23	27	1.67
9492529--9492605	11	6.9	11	69	24	54	44	1	28	25	1.62
9492529--9492603	22	3.4	22	77	22	77	44	1	28	26	1.63
9492529--9492604	34	2.3	34	79	6	84	43	1	28	26	1.63
9498601--9498641	21	2.0	21	90	0	64	19	29	21	29	1.98
9506533--9506568	7	5.1	7	100	0	72	13	41	0	44	1.44
9517325--9517388	22	3.1	22	63	28	59	46	10	9	32	1.71
9517308--9517388	39	2.1	39	97	0	153	46	11	9	32	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9522412--9522475	17	3.5	17	69	19	56	46	14	9	29	1.75
9522413--9522491	39	2.0	39	100	0	158	46	15	10	27	1.77
9523542--9523613	35	2.1	35	97	0	135	41	2	9	45	1.51
9523760--9523785	13	2.0	13	100	0	52	61	0	0	38	0.96
9526895--9526958	3	22.3	3	80	6	62	68	0	29	1	0.99
9527622--9527659	20	1.9	20	88	0	58	34	26	13	26	1.93
9532515--9532548	17	2.0	17	94	0	59	44	50	0	5	1.26
9537154--9537187	17	2.0	17	94	0	59	44	50	0	5	1.26
9539034--9539079	22	2.2	21	85	11	60	43	2	0	54	1.12
9545505--9545534	12	2.5	12	94	0	51	63	6	30	0	1.20
9546087--9546157	22	3.2	22	63	21	58	42	12	7	38	1.70
9546069--9546162	44	2.1	44	100	0	188	37	13	6	42	1.70
9546141--9546184	22	2.0	22	91	4	72	40	13	4	40	1.65
9546377--9546420	19	2.3	19	84	0	61	43	4	2	50	1.35
9546660--9546710	13	3.9	13	86	0	75	39	23	9	27	1.86
9546660--9546710	26	2.0	26	92	0	84	39	23	9	27	1.86
9547119--9547153	3	11.7	3	100	0	70	31	0	0	68	0.90
9548929--9548975	9	5.2	9	82	14	53	57	2	0	40	1.11
9548928--9548992	8	7.8	8	77	14	51	53	1	0	44	1.09
9559553--9559593	18	2.2	19	91	4	66	39	0	0	60	0.96
9559541--9559596	20	2.8	19	76	7	58	37	0	1	60	1.07
9559541--9559594	19	2.7	20	80	13	67	37	0	1	61	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9559617--9559667	19	2.7	19	82	8	68	37	0	3	58	1.16
9559617--9559667	20	2.7	19	85	8	68	37	0	3	58	1.16
9559608--9559668	19	3.2	20	77	11	67	36	0	4	59	1.19
9559747--9559776	9	3.3	9	90	0	51	40	10	3	46	1.54
9561931--9561965	18	1.9	18	88	0	52	54	5	5	34	1.48
9562166--9562223	24	2.3	25	85	5	73	63	5	0	31	1.16
9562166--9562229	26	2.6	24	85	5	74	60	4	1	32	1.26
9562182--9562223	20	2.1	20	86	0	57	61	4	0	33	1.17
9562194--9562277	38	2.2	37	81	12	100	53	2	8	35	1.44
9562408--9562451	3	14.3	3	85	4	61	61	0	6	31	1.22
9563281--9563317	17	2.2	17	90	0	56	2	5	10	81	0.96
9563743--9563775	10	3.0	11	86	13	50	45	0	0	54	0.99
9564078--9564115	3	13.0	3	94	5	69	68	0	0	31	0.90
9573608--9573650	21	2.0	21	83	16	54	62	9	2	25	1.37
9575171--9575676	44	11.7	43	71	12	254	27	22	20	29	1.99
9575171--9575692	217	2.4	217	90	0	839	27	22	20	29	1.98
9584489--9584566	39	2.0	39	100	0	156	23	28	7	41	1.82
9587662--9587717	21	2.7	19	80	20	60	66	7	1	25	1.27
9589500--9589576	37	2.1	37	100	0	154	38	15	10	35	1.82
9597326--9597362	9	4.1	9	92	0	65	29	10	13	45	1.77
9609413--9609451	17	2.3	18	82	13	55	30	7	0	61	1.24
9614592--9614661	16	4.4	16	90	0	113	37	1	34	27	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9614875--9614916	15	2.7	16	82	14	52	52	2	0	45	1.13
9614884--9614925	15	2.9	15	82	10	52	52	0	0	47	1.00
9614910--9615097	61	3.1	60	70	14	188	48	5	2	43	1.39
9614878--9615170	120	2.4	121	94	1	500	50	4	2	42	1.36
9614994--9615045	15	3.6	15	80	12	56	53	1	0	44	1.11
9614878--9615174	59	5.0	58	68	16	187	50	4	2	42	1.36
9615186--9615394	92	2.3	92	89	3	305	45	4	3	45	1.41
9621258--9621437	87	2.1	87	96	0	333	23	30	14	31	1.94
9624829--9624906	39	2.0	39	100	0	156	38	17	7	35	1.79
9636923--9637026	54	1.9	54	94	0	181	25	22	16	36	1.94

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