genome.fa.s15.2.7.7.80.10.50.1000.12.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  12  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)
4009265--4009307	22	2.0	22	85	0	59	55	9	13	20	1.66
4012080--4012139	9	6.7	9	72	12	52	61	0	3	35	1.12
4012167--4012211	21	2.1	21	84	8	56	57	2	11	28	1.45
4015082--4015107	13	2.0	13	100	0	52	30	23	23	23	1.99
4018941--4018983	19	2.2	20	84	12	63	32	18	0	48	1.48
4021525--4021592	26	2.8	26	78	12	74	64	0	1	33	1.02
4021616--4021676	3	20.3	3	80	12	72	63	0	3	32	1.10
4021612--4021676	24	2.7	24	83	11	87	63	0	3	33	1.10
4022943--4023012	31	2.2	30	85	12	88	50	7	1	41	1.39
4027046--4027955	356	2.6	353	85	5	1171	34	17	25	23	1.96
4041514--4041571	29	1.9	31	89	6	93	56	5	13	24	1.57
4047360--4047390	10	3.1	10	95	0	53	16	19	12	51	1.76
4050956--4051036	29	2.7	30	84	5	119	34	14	14	35	1.88
4051366--4051410	23	2.0	23	82	8	56	20	8	13	57	1.62
4052797--4052853	24	2.4	24	94	5	98	33	43	10	12	1.76
4052736--4053030	120	2.6	115	85	4	364	27	47	8	16	1.75
4053189--4053496	12	25.8	12	70	9	155	16	26	17	39	1.91
4053237--4053498	6	43.8	6	69	7	113	16	25	17	40	1.90
4053241--4053498	18	14.4	18	70	11	136	17	25	17	39	1.91
4053241--4053335	42	2.3	42	88	0	136	16	25	17	40	1.91
4053191--4053498	30	10.3	30	70	10	130	16	25	17	39	1.91
4055244--4055315	30	2.4	30	80	0	81	26	56	6	9	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4055284--4055324	21	2.0	21	85	0	55	24	51	4	19	1.66
4057976--4058017	17	2.5	17	84	3	50	2	21	0	76	0.90
4058626--4058736	3	37.0	3	73	3	89	7	4	61	27	1.42
4058627--4058698	27	2.7	27	95	0	126	8	5	59	26	1.48
4058654--4058736	36	2.3	36	95	0	148	6	3	62	27	1.35
4058618--4058734	27	4.2	28	81	10	98	8	5	60	25	1.46
4059965--4060267	18	16.5	18	74	7	155	41	17	26	14	1.88
4059967--4060130	24	6.8	24	75	15	151	40	18	25	15	1.90
4059963--4060225	42	6.4	42	75	7	245	41	17	26	14	1.89
4059963--4060267	12	25.4	12	68	5	125	41	17	25	15	1.88
4059963--4060244	24	12.2	24	75	12	141	41	17	25	14	1.88
4060428--4060544	54	2.2	54	93	0	198	17	5	51	24	1.68
4060476--4060641	90	1.8	90	89	5	264	15	6	49	28	1.70
4060615--4060650	9	4.0	9	88	0	54	11	0	63	25	1.27
4060566--4060704	63	2.2	63	92	2	226	17	4	51	26	1.63
4063196--4063280	42	2.0	43	95	2	154	38	8	7	45	1.61
4065525--4065587	13	4.8	13	80	7	74	31	6	25	36	1.81
4066730--4066808	24	3.4	24	81	13	94	39	6	1	53	1.35
4070969--4071021	27	2.0	27	96	0	97	22	9	33	33	1.86
4071189--4071213	2	12.5	2	100	0	50	0	48	0	52	1.00
4074252--4074292	21	2.0	21	90	0	64	34	53	0	12	1.38
4074315--4074442	12	10.7	12	79	6	143	2	26	23	47	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4074385--4074466	6	13.7	6	72	0	56	7	28	23	41	1.81
4074385--4074466	12	6.8	12	80	0	92	7	28	23	41	1.81
4074592--4074831	6	40.0	6	73	5	108	17	23	15	44	1.86
4074534--4074613	12	6.7	12	77	5	72	6	26	20	47	1.73
4074592--4074823	42	5.5	42	82	3	234	16	23	15	44	1.86
4074810--4075353	156	3.5	156	96	0	998	20	34	7	37	1.80
4075114--4075151	18	2.1	18	90	0	58	15	34	7	42	1.76
4075295--4075407	54	2.1	53	91	1	181	16	32	5	45	1.70
4075481--4075515	12	2.9	12	86	0	52	20	22	5	51	1.68
4075144--4076037	210	4.3	210	88	0	1331	20	33	6	39	1.78
4075512--4075617	54	2.0	54	92	0	176	16	33	6	42	1.75
4075722--4075827	54	2.0	54	88	0	158	17	33	5	42	1.73
4075934--4076091	54	2.9	54	91	0	244	18	36	4	41	1.71
4075724--4076241	264	2.0	258	89	3	786	20	34	6	38	1.77
4078122--4078212	45	2.0	45	100	0	182	28	15	5	50	1.66
4081792--4081826	16	2.1	17	89	5	54	45	2	11	40	1.55
4085254--4085557	43	7.1	43	88	3	371	28	30	17	24	1.97
4085254--4085561	129	2.4	129	87	3	433	28	29	16	25	1.97
4085767--4085804	19	2.0	19	90	10	60	57	2	7	31	1.41
4085921--4086045	66	1.9	66	83	6	164	20	24	14	40	1.89
4085943--4086069	66	1.9	66	84	6	168	18	25	14	41	1.88
4087678--4087702	10	2.5	10	100	0	50	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4091489--4091570	25	3.3	25	84	6	112	35	1	15	47	1.54
4091514--4091895	34	11.8	34	71	16	221	30	1	20	46	1.61
4091530--4091800	120	2.3	117	89	5	418	31	2	20	46	1.63
4091769--4091898	25	5.5	24	66	19	78	30	0	22	46	1.57
4091886--4092038	12	14.1	12	65	24	65	34	2	13	49	1.56
4091882--4092026	42	3.2	42	73	19	146	35	2	13	48	1.57
4091928--4091973	7	6.6	7	78	16	51	28	0	10	60	1.30
4091928--4091973	15	3.3	15	79	17	62	28	0	10	60	1.30
4091460--4091898	9	51.7	9	68	17	235	31	1	20	46	1.60
4091882--4092054	95	1.8	95	86	6	253	35	2	13	47	1.58
4092237--4092336	45	2.2	45	92	1	164	49	6	4	41	1.46
4092302--4092329	13	2.2	13	100	0	56	46	7	7	39	1.59
4092270--4092394	17	7.2	17	71	21	100	51	5	4	38	1.47
4092626--4092666	22	1.9	22	90	5	66	19	14	24	41	1.89
4092870--4092921	20	2.5	21	81	9	61	46	21	7	25	1.77
4094393--4094427	15	2.2	16	95	5	63	51	11	0	37	1.38
4094782--4094894	19	5.8	19	85	4	163	38	10	15	34	1.83
4094783--4094889	40	2.7	40	92	2	173	39	11	14	34	1.82
4095506--4095549	23	1.9	23	100	0	88	27	6	4	61	1.41
4096184--4096380	98	2.0	98	94	0	349	27	10	24	37	1.88
4100166--4100311	41	3.6	41	91	0	220	23	29	19	27	1.98
4100161--4100360	82	2.4	82	82	8	221	24	28	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4102010--4102038	14	2.0	15	93	6	51	55	20	0	24	1.44
4104264--4104326	25	2.5	25	78	2	72	39	19	17	23	1.92
4106133--4106199	9	7.4	9	86	6	100	25	8	22	43	1.82
4111179--4111224	14	3.3	14	79	14	51	45	4	0	50	1.21
4111414--4111503	24	3.4	24	68	21	72	43	17	2	36	1.62
4111429--4111517	28	3.2	28	71	23	96	42	21	1	34	1.60
4111403--4111517	56	2.1	56	100	0	230	43	19	1	35	1.61
4113238--4113287	24	2.1	24	84	0	64	40	34	8	18	1.79
4113279--4113493	66	3.3	66	93	1	342	22	46	5	25	1.73
4113366--4113613	120	2.1	120	86	1	336	23	43	6	25	1.77
4113432--4113547	54	2.1	54	81	6	128	25	40	6	28	1.79
4113486--4114124	66	9.4	66	83	8	737	24	44	5	25	1.75
4113300--4114093	186	4.0	187	73	15	686	24	45	5	25	1.75
4113488--4114115	348	1.8	343	86	5	905	24	45	5	25	1.75
4114061--4114324	90	3.1	90	87	6	363	26	40	3	29	1.72
4120529--4120614	39	2.2	39	100	0	172	25	44	6	23	1.78
4120569--4121095	66	8.0	66	87	2	747	24	45	6	24	1.76
4129452--4129746	146	2.0	146	87	1	421	40	25	7	26	1.82
4131032--4131075	23	2.0	22	81	4	52	29	2	11	56	1.46
4134587--4134635	22	2.3	21	86	13	66	26	0	4	69	1.06
4135043--4135086	22	2.0	23	86	4	63	65	4	2	27	1.23
4135502--4135535	16	2.2	15	89	5	50	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4135504--4135554	26	2.0	26	84	7	68	37	0	1	60	1.08
4135797--4135828	15	2.1	15	94	0	55	25	6	3	65	1.31
4138403--4138430	4	7.0	4	100	0	56	25	0	0	75	0.81
4138914--4138960	24	2.0	24	91	0	76	31	10	12	44	1.77
4143038--4143077	21	2.0	21	90	5	64	55	0	0	45	0.99
4146242--4146309	20	3.5	19	77	16	68	61	4	2	30	1.30
4153364--4153440	25	3.0	25	80	1	91	23	11	7	57	1.60
4164491--4164567	34	2.3	34	93	4	129	20	20	14	44	1.86
4175056--4175085	16	1.9	16	93	6	53	53	3	10	33	1.51
4190418--4190476	29	2.0	30	90	3	93	27	5	16	50	1.66

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