genome.fa.s15.2.7.7.80.10.50.1000.13.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_D02
Parameters: 2 7 7 80 10 50 1000
Length:  67659327

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   

This is table  13  of  216  ( 25871 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)
4190423--4190491	29	2.3	29	85	9	86	30	5	13	50	1.64
4191188--4191264	21	3.4	21	71	23	66	24	5	3	66	1.30
4191249--4191305	22	2.7	20	76	12	60	31	0	3	64	1.10
4191376--4191462	19	4.7	19	73	12	74	24	4	3	67	1.25
4191427--4191471	19	2.4	19	81	7	56	31	6	0	62	1.21
4195008--4195051	22	2.0	22	82	8	54	50	6	4	38	1.50
4196107--4196170	30	2.2	28	81	18	69	57	1	4	35	1.29
4196114--4196176	30	2.0	34	87	12	98	52	1	4	41	1.32
4196452--4196552	47	2.4	38	73	25	112	49	2	3	43	1.36
4196465--4196554	47	1.9	47	97	0	171	44	4	4	46	1.43
4198556--4198581	11	2.4	11	100	0	52	15	0	19	65	1.27
4199750--4199820	23	3.0	23	93	4	124	35	11	8	45	1.70
4209417--4209447	15	2.1	15	100	0	62	45	0	48	6	1.28
4212234--4212284	23	2.2	23	82	6	59	70	1	0	27	0.98
4218263--4218378	59	2.0	59	87	1	171	29	12	18	39	1.87
4218595--4218645	21	2.5	22	81	12	63	47	0	1	50	1.12
4218956--4219149	104	1.8	106	82	9	254	42	10	2	44	1.51
4219416--4219473	31	1.9	31	92	3	100	27	10	13	48	1.75
4220839--4220871	15	2.3	15	89	5	50	36	3	0	60	1.12
4221415--4221458	21	2.1	21	86	0	61	50	25	11	13	1.75
4221877--4222010	66	2.0	66	95	0	241	37	10	29	23	1.88
4225171--4225214	22	2.0	22	82	4	54	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4225239--4225281	6	7.0	6	80	15	52	34	2	0	62	1.08
4225903--4225945	20	2.2	20	84	8	54	55	23	2	18	1.54
4230593--4230652	23	2.6	23	76	5	68	31	6	20	41	1.78
4231731--4231778	19	2.7	18	75	9	53	60	0	4	35	1.16
4232579--4232616	20	1.9	20	89	10	60	34	0	0	65	0.93
4233504--4233557	25	2.2	23	83	9	63	70	1	1	25	1.07
4233504--4233557	26	2.2	24	83	6	63	70	1	1	25	1.07
4233552--4233578	7	3.9	7	100	0	54	88	0	0	11	0.50
4244017--4244097	39	2.1	39	81	2	92	29	7	13	49	1.69
4257037--4257117	29	2.8	28	83	9	90	33	6	3	56	1.42
4260975--4261013	12	3.2	12	88	0	51	33	0	0	66	0.92
4270364--4270398	16	2.2	16	100	0	70	34	5	40	20	1.76
4270376--4270472	44	2.2	45	83	9	119	35	5	27	31	1.79
4270609--4270930	120	2.7	119	96	1	583	51	3	0	43	1.25
4270814--4270857	21	2.1	21	87	8	63	54	6	0	38	1.27
4270869--4270902	17	2.0	17	100	0	68	58	0	0	41	0.98
4273500--4273586	38	2.4	34	83	11	95	66	5	26	1	1.21
4307088--4307454	103	3.6	103	90	2	544	17	20	29	31	1.96
4307268--4307319	27	1.9	27	100	0	104	13	23	32	30	1.93
4309391--4309442	11	4.9	11	73	17	56	55	0	1	42	1.10
4309439--4309567	9	13.6	9	67	13	62	65	0	3	31	1.11
4309428--4309500	29	2.6	29	97	2	139	65	0	2	31	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4309407--4309533	69	1.9	66	98	1	218	64	0	3	32	1.09
4309462--4309567	29	3.7	28	63	13	63	62	0	3	33	1.13
4314821--4314885	30	2.2	30	85	0	85	35	7	24	32	1.84
4315216--4315360	33	4.3	32	71	25	104	17	20	27	34	1.95
4315279--4315329	26	2.0	26	100	0	102	15	23	33	27	1.95
4315216--4315568	101	3.5	101	90	4	514	18	20	28	32	1.96
4315382--4315433	27	1.9	27	100	0	104	13	23	32	30	1.93
4315216--4315568	103	3.5	101	90	5	516	18	20	28	32	1.96
4325650--4325822	86	2.0	86	96	0	319	17	11	29	41	1.85
4328862--4328958	49	2.0	49	87	4	142	18	15	20	45	1.85
4330955--4330998	23	1.9	23	100	0	88	34	2	27	36	1.70
4339093--4339135	14	3.3	14	75	18	56	32	11	20	34	1.89
4340191--4340325	57	2.4	56	81	4	164	33	11	17	37	1.87
4340189--4340356	57	2.9	56	73	13	162	30	13	17	39	1.87
4341570--4341598	6	4.8	6	100	0	58	65	17	0	17	1.27
4341637--4341667	9	3.4	9	90	0	53	25	9	22	41	1.84
4343125--4343184	24	2.4	25	78	10	70	35	3	6	55	1.43
4349757--4349802	23	2.1	21	84	8	56	58	4	6	30	1.43
4350793--4350946	56	2.7	56	75	9	159	31	12	18	38	1.87
4353120--4353315	57	3.6	56	77	7	208	30	12	19	37	1.89
4353493--4353524	12	2.7	12	100	0	64	40	15	15	28	1.88
4361678--4361755	17	4.6	17	73	12	70	44	14	12	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4361790--4361889	19	5.1	19	68	20	71	46	11	14	29	1.78
4361821--4362099	17	16.4	17	66	14	83	47	9	11	31	1.72
4361950--4362054	36	3.0	34	81	10	122	48	7	12	31	1.69
4362032--4362072	19	2.1	20	86	4	57	43	7	9	39	1.65
4362014--4362115	52	2.0	52	84	3	134	47	9	9	33	1.70
4362090--4362129	19	2.0	21	85	9	57	40	10	5	45	1.60
4362246--4362283	20	1.9	20	88	0	58	42	7	13	36	1.73
4362513--4362555	19	2.2	19	83	4	50	72	2	4	20	1.14
4362713--4362771	18	3.1	18	83	11	57	6	13	0	79	0.92
4362732--4362790	21	2.8	19	78	16	55	1	22	0	76	0.88
4362719--4362799	11	7.2	11	75	19	60	3	20	0	75	0.96
4362759--4362799	14	2.9	14	85	0	55	0	31	0	68	0.90
4363333--4363507	30	6.0	29	76	13	144	37	5	24	33	1.77
4363716--4364752	79	13.7	74	88	5	620	35	20	16	26	1.94
4363794--4364380	79	7.5	78	90	4	864	35	20	16	28	1.94
4363794--4364380	157	3.7	156	90	4	864	35	20	16	28	1.94
4363794--4364662	236	3.8	233	84	8	723	35	20	16	26	1.94
4364264--4364740	70	6.5	70	89	6	611	36	20	17	25	1.94
4364326--4364739	213	1.9	214	90	6	665	35	21	17	25	1.95
4364264--4364742	143	3.3	143	87	8	655	36	20	17	25	1.94
4365624--4365675	9	5.4	9	80	13	59	0	3	9	86	0.69
4365618--4365675	30	1.9	30	89	0	89	0	5	8	86	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4371474--4371532	18	3.3	18	83	9	75	35	10	13	40	1.78
4371474--4371531	17	3.3	18	79	15	68	36	10	13	39	1.79
4371456--4371530	36	2.1	38	85	9	104	41	10	12	36	1.77
4371492--4371551	20	3.1	20	73	4	52	35	8	13	43	1.74
4371572--4371608	17	2.1	18	90	5	58	54	16	10	18	1.71
4371605--4371641	17	2.2	17	95	0	65	37	5	5	51	1.48
4371641--4371740	19	5.1	19	64	21	53	46	10	14	30	1.77
4371675--4371976	17	16.6	17	68	14	83	45	9	11	32	1.74
4371675--4371943	17	14.5	18	66	15	95	45	9	12	33	1.74
4371675--4371882	36	6.1	34	66	17	112	45	9	12	32	1.74
4371761--4371818	20	3.0	20	87	5	75	41	8	10	39	1.70
4371590--4371873	150	1.9	149	87	6	423	44	9	11	33	1.74
4371830--4371923	36	2.6	34	80	9	107	45	8	12	32	1.73
4371901--4371943	21	2.0	22	86	4	61	41	6	9	41	1.64
4371923--4371975	16	3.2	16	81	7	63	47	13	9	30	1.74
4371957--4372001	20	2.1	22	84	15	60	37	11	4	46	1.60
4372120--4372157	20	1.9	20	88	0	58	42	7	13	36	1.73
4372583--4372627	23	2.0	23	90	0	72	11	6	0	82	0.84
4372629--4372669	14	2.9	14	85	0	55	0	31	0	68	0.90
4372588--4372669	11	7.2	11	76	16	60	4	19	0	75	0.98
4373299--4373392	30	3.2	29	79	10	93	38	1	23	37	1.62
4373726--4373916	57	3.6	56	70	20	165	29	14	18	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4373726--4373847	55	2.2	55	82	5	138	30	13	17	38	1.89
4373695--4373847	57	2.7	54	76	9	146	31	12	15	40	1.85
4373802--4373890	45	2.0	45	82	10	112	25	15	13	44	1.83
4374163--4374257	49	1.9	49	86	2	136	43	9	8	38	1.68
4380537--4380666	66	2.0	66	93	3	226	19	30	13	36	1.90
4385106--4385153	19	2.6	19	93	3	80	14	8	12	64	1.49
4391655--4391835	91	2.0	91	85	4	249	42	18	13	25	1.87
4397868--4397940	38	1.9	37	86	8	103	31	21	1	45	1.61
4397928--4397971	23	1.9	22	82	17	54	38	22	0	38	1.55
4398059--4398180	23	5.3	23	89	0	199	31	24	21	22	1.98

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   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