genome.fa.s18.2.7.7.80.10.50.1000.88.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: Gbar_D05
Parameters: 2 7 7 80 10 50 1000
Length:  63323194

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   

This is table  88  of  199  ( 23841 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)
30700026--30700644	174	3.5	173	89	4	893	37	5	6	51	1.50
30700292--30700332	19	2.2	19	86	0	55	41	2	2	53	1.27
30700399--30700448	24	2.1	24	85	7	66	36	8	4	52	1.50
30700464--30700516	19	2.8	18	74	8	52	37	5	3	52	1.43
30703718--30703925	108	1.9	109	82	8	264	30	22	15	32	1.95
30706112--30706218	49	2.3	46	81	4	124	41	7	13	38	1.72
30707875--30707931	29	1.9	30	85	3	80	54	14	1	29	1.50
30719566--30719707	66	2.2	66	89	2	214	38	19	28	14	1.91
30719683--30719748	21	3.1	21	71	0	60	33	15	42	9	1.78
30719960--30719989	14	2.1	14	100	0	60	13	0	33	53	1.40
30720073--30720537	43	10.9	43	86	3	476	25	22	28	23	1.99
30720117--30720559	171	2.6	171	81	5	498	25	22	28	23	1.99
30728134--30728303	83	2.0	83	90	0	268	19	10	20	50	1.75
30730082--30730120	15	2.4	16	91	8	62	66	0	5	28	1.12
30730839--30730886	21	2.3	21	85	0	60	16	39	18	25	1.91
30730848--30730888	21	2.0	21	90	0	64	12	36	24	26	1.91
30735893--30735929	18	2.1	18	94	0	65	24	0	24	51	1.49
30736275--30736361	39	2.2	39	87	2	129	36	4	22	35	1.75
30738368--30738410	3	14.3	3	80	0	50	58	9	0	32	1.30
30738368--30738410	18	2.4	18	88	0	68	58	9	0	32	1.30
30738372--30738406	6	5.8	6	96	0	61	54	11	0	34	1.37
30739536--30739678	43	3.3	43	87	1	196	26	28	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30740814--30740846	17	1.9	17	100	0	66	51	6	0	42	1.26
30749116--30749156	16	2.6	16	85	11	57	4	7	2	85	0.81
30749176--30749204	10	2.9	10	100	0	58	10	17	10	62	1.54
30754074--30754127	25	2.2	25	86	6	74	44	1	5	48	1.37
30754865--30754900	18	2.0	18	88	0	54	41	25	13	19	1.88
30755719--30755747	11	2.6	11	100	0	58	48	6	0	44	1.29
30763981--30764022	22	2.0	21	81	13	50	38	9	7	45	1.64
30764001--30764291	17	16.3	18	70	18	141	46	10	10	32	1.73
30764000--30764291	35	8.1	35	70	19	135	45	10	10	33	1.72
30764761--30764816	23	2.3	24	87	6	78	0	17	1	80	0.80
30764759--30764829	24	2.9	25	84	16	78	1	16	1	80	0.86
30764777--30764829	16	3.2	16	80	15	63	1	16	0	81	0.79
30764759--30764830	31	2.3	34	79	18	84	1	16	2	79	0.93
30764776--30764816	8	5.2	8	83	13	50	0	21	0	78	0.76
30764760--30764829	32	2.2	32	82	10	81	1	15	1	81	0.84
30765897--30765968	30	2.4	30	83	0	90	45	1	16	36	1.56
30766290--30766804	76	6.7	77	88	2	675	34	19	15	29	1.93
30766290--30766804	231	2.2	230	86	3	707	34	19	15	29	1.93
30766290--30766807	153	3.4	154	86	3	670	34	19	15	29	1.93
30767690--30767742	6	8.8	6	87	6	72	1	0	15	83	0.74
30767687--30767745	17	3.4	17	88	4	91	1	0	13	84	0.69
30767679--30767745	35	1.9	35	87	6	100	1	0	16	82	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30777929--30778172	17	13.7	17	71	12	143	44	10	12	32	1.77
30777961--30778174	18	12.0	16	70	16	79	45	10	11	32	1.74
30778649--30778720	8	8.8	8	77	10	65	1	13	1	83	0.79
30778656--30778711	25	2.2	26	87	3	78	1	14	0	83	0.72
30778665--30778721	18	3.2	17	80	7	69	1	14	0	84	0.71
30778656--30778711	26	2.2	26	87	6	78	1	14	0	83	0.72
30778648--30778723	32	2.3	34	84	11	104	1	14	1	82	0.79
30778672--30778725	23	2.3	23	84	9	74	1	12	0	85	0.69
30778648--30778720	25	3.0	23	80	7	74	1	15	1	82	0.81
30779200--30779246	25	1.9	25	87	12	71	10	17	4	68	1.35
30779761--30779909	30	5.1	29	75	15	119	38	6	20	34	1.78
30780661--30780700	18	2.1	19	86	9	55	55	0	2	42	1.13
30783831--30783866	14	2.6	14	95	0	63	52	0	11	36	1.37
30784123--30784187	31	2.1	31	100	0	130	49	3	20	27	1.64
30795495--30795548	27	2.0	27	96	0	99	40	31	7	20	1.80
30797582--30797684	42	2.5	42	82	3	127	20	20	35	23	1.96
30806217--30806422	102	2.0	105	80	4	231	26	23	28	21	1.99
30807975--30808213	40	5.9	40	78	7	182	35	18	25	19	1.95
30807975--30808213	80	3.0	80	77	5	207	35	18	25	19	1.95
30808692--30808754	25	2.5	25	87	5	83	57	15	20	6	1.61
30813053--30813091	19	2.1	19	100	0	78	17	5	5	71	1.23
30813053--30813100	19	2.5	19	90	6	62	20	6	4	68	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30813061--30813105	19	2.3	19	84	7	54	24	4	4	66	1.29
30814691--30814873	43	4.3	43	82	4	212	31	28	16	23	1.96
30823826--30823877	24	2.2	23	89	6	77	78	9	5	5	1.07
30824303--30824345	12	3.5	12	80	3	50	83	4	11	0	0.78
30824302--30824344	9	4.7	9	85	2	59	83	4	11	0	0.78
30825725--30825905	43	4.2	43	67	6	132	27	19	25	26	1.99
30825754--30825997	44	5.6	44	66	6	136	29	20	23	27	1.99
30825662--30826025	130	2.8	130	92	1	577	28	20	23	27	1.99
30825952--30826584	270	2.3	269	94	1	1115	27	20	22	29	1.99
30825952--30826584	134	4.7	135	94	0	1117	27	20	22	29	1.99
30826595--30827037	82	5.4	82	89	2	606	31	24	20	22	1.98
30826595--30827038	124	3.6	123	81	6	531	31	25	20	22	1.98
30832449--30832474	13	2.0	13	100	0	52	69	7	23	0	1.14
30832466--30832515	26	1.9	26	84	8	66	80	18	2	0	0.82
30832940--30833011	16	4.4	16	77	11	58	80	1	15	2	0.89
30832957--30833011	9	6.3	9	77	12	53	81	1	14	1	0.85
30832952--30833011	17	3.6	16	82	8	75	81	1	15	1	0.85
30832939--30833011	33	2.2	34	85	9	98	79	1	15	4	0.95
30832952--30833014	24	2.5	25	80	14	76	79	1	17	1	0.89
30834036--30834224	44	4.4	44	77	7	181	29	15	27	27	1.96
30833991--30834223	88	2.7	89	78	7	203	27	15	27	30	1.96
30833965--30834232	132	2.1	129	89	2	410	27	16	26	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30834244--30834522	98	2.8	99	88	5	422	29	22	22	25	1.99
30834514--30834966	132	3.4	132	89	1	642	28	18	24	28	1.98
30834615--30834806	44	4.4	44	67	5	109	29	19	21	29	1.98
30835010--30835564	44	12.9	42	66	21	201	33	22	20	23	1.97
30835010--30835564	84	6.4	83	66	20	257	33	22	20	23	1.97
30834909--30835736	217	3.8	217	93	1	1360	32	21	21	24	1.98
30839635--30839680	17	2.8	16	90	6	65	45	0	6	47	1.28
30840132--30840218	41	2.1	41	95	0	156	37	17	16	28	1.91
30840639--30840720	41	2.0	41	87	0	119	29	28	18	24	1.98
30840756--30840831	39	1.9	39	84	5	100	21	21	22	35	1.96
30841118--30841160	22	2.0	22	86	9	61	60	6	2	30	1.35
30841252--30841289	9	4.3	9	87	12	53	65	0	0	34	0.93
30841263--30841289	3	9.0	3	100	0	54	66	0	0	33	0.92
30846911--30846935	13	1.9	13	100	0	50	36	0	0	64	0.94
30847617--30847825	108	2.0	105	91	2	337	27	19	19	33	1.96
30851021--30851072	22	2.2	24	83	13	81	42	3	13	40	1.62
30851025--30851070	22	2.1	22	95	0	83	45	4	15	34	1.66
30853357--30853412	24	2.3	23	82	11	76	48	0	3	48	1.19
30855272--30855306	14	2.4	14	90	4	52	77	2	11	8	1.10
30857468--30857512	18	2.3	20	85	7	58	62	2	2	33	1.20
30858826--30858867	22	1.9	22	95	0	75	21	19	14	45	1.85
30859130--30859184	27	2.1	27	86	3	76	65	7	0	27	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30860312--30860362	25	2.0	25	81	7	59	35	1	3	58	1.28
30863072--30863097	6	4.3	6	100	0	52	15	0	0	84	0.62
30863501--30863580	33	2.4	34	85	8	112	16	25	37	21	1.93
30866571--30866603	14	2.2	15	89	10	50	18	0	0	81	0.68
30867110--30867150	17	2.4	18	80	12	50	21	4	0	73	1.02
30881743--30881806	13	4.9	13	81	7	76	29	6	25	39	1.80
30882293--30882408	58	2.0	58	100	0	232	39	18	5	36	1.74
30891422--30891468	23	2.0	23	92	8	78	42	0	6	51	1.27
30891425--30891474	23	2.2	23	85	7	66	44	2	6	48	1.39
30894045--30894101	24	2.4	24	81	0	69	22	7	8	61	1.50

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