genome.fa.s22.2.7.7.80.10.50.1000.16.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_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

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   

This is table  16  of  172  ( 20605 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)
4156108--4156167	30	2.0	31	86	3	86	20	40	0	40	1.52
4156245--4156300	19	3.1	18	80	17	55	23	28	0	48	1.51
4156425--4156471	17	2.8	17	79	20	62	36	2	6	55	1.37
4156915--4156940	5	5.2	5	100	0	52	19	19	19	42	1.90
4161624--4161673	25	2.0	25	100	0	100	32	12	16	40	1.84
4162666--4162706	11	3.7	11	86	0	55	7	39	12	41	1.70
4164098--4164279	7	26.0	7	80	0	139	40	0	30	28	1.61
4164098--4164258	56	2.9	56	92	0	250	42	0	29	26	1.60
4175008--4175044	12	3.0	13	84	11	51	29	40	18	10	1.85
4176662--4176688	6	4.5	6	100	0	54	85	0	14	0	0.61
4178185--4178226	8	5.5	8	82	5	52	54	0	2	42	1.13
4178179--4178230	22	2.4	21	87	6	77	59	0	1	38	1.08
4179630--4179672	21	2.0	21	86	8	61	39	2	4	53	1.34
4182004--4182045	22	1.9	22	100	0	84	33	4	7	54	1.49
4185274--4185321	22	2.2	22	82	14	55	50	18	0	31	1.48
4188728--4188950	119	1.9	120	83	6	292	25	27	22	24	2.00
4188726--4188950	40	5.7	40	84	6	278	25	28	22	24	1.99
4191294--4191391	3	32.7	3	77	0	52	55	5	10	29	1.55
4191344--4191391	18	2.7	18	78	12	62	54	2	12	31	1.49
4192959--4194056	50	22.1	50	75	3	690	26	19	21	32	1.97
4192959--4193897	100	9.4	100	83	1	1053	26	18	21	32	1.97
4193020--4194056	100	10.4	99	82	3	996	26	18	21	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4194229--4194652	88	4.8	88	82	2	503	27	23	19	29	1.98
4194247--4194386	44	3.2	44	67	15	117	30	27	17	25	1.98
4195899--4195942	15	3.1	15	87	12	58	13	18	0	68	1.22
4195901--4195942	7	6.0	7	79	20	52	14	16	0	69	1.20
4196859--4196907	15	3.5	14	81	8	55	18	2	8	71	1.21
4200553--4200577	13	1.9	13	100	0	50	56	0	4	40	1.18
4205508--4205574	30	2.2	30	91	0	107	13	43	34	8	1.75
4225192--4225412	108	2.0	108	89	0	334	25	16	8	49	1.73
4225843--4225900	24	2.4	24	85	5	73	34	12	20	32	1.90
4226216--4226661	40	10.6	42	71	13	194	30	21	22	25	1.98
4226345--4226665	40	7.8	40	73	9	277	30	22	22	25	1.99
4226346--4226794	210	2.2	206	87	3	630	31	22	21	24	1.98
4226210--4226661	167	2.7	168	80	9	553	31	21	22	25	1.98
4226216--4226774	127	4.4	127	76	9	416	31	21	21	25	1.98
4226210--4226704	83	5.9	83	75	8	324	31	21	22	24	1.98
4230538--4230580	21	2.0	21	90	0	68	32	13	27	25	1.94
4232173--4232687	184	2.8	184	88	1	728	43	20	8	27	1.81
4232539--4232620	30	2.7	30	75	5	85	42	24	7	25	1.80
4234563--4234594	16	2.0	16	93	0	55	25	15	0	59	1.36
4234860--4234986	50	2.5	51	87	3	168	29	27	14	27	1.96
4237062--4237123	25	2.3	27	81	8	65	62	6	3	27	1.35
4237089--4237123	12	2.8	13	86	8	54	68	0	2	28	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4246257--4246631	186	2.0	186	93	0	642	28	17	13	40	1.87
4250421--4250465	22	2.0	22	84	16	58	35	13	4	46	1.63
4250416--4250467	21	2.4	22	76	20	56	34	13	5	46	1.67
4251565--4251601	13	2.7	14	91	4	58	37	5	16	40	1.71
4251585--4251624	20	2.0	20	95	0	71	32	10	12	45	1.75
4251571--4251634	34	1.9	32	87	12	94	35	7	12	43	1.71
4251615--4251700	33	2.7	32	74	16	88	27	8	17	46	1.76
4251722--4251760	20	2.0	20	94	0	69	48	2	0	48	1.15
4257025--4257176	23	6.7	23	72	5	123	46	33	3	16	1.63
4257030--4257158	45	2.8	46	83	3	145	45	34	3	17	1.64
4257064--4257176	45	2.5	45	82	5	131	46	34	2	16	1.62
4258416--4258489	37	2.0	37	89	0	112	36	22	9	31	1.86
4264916--4264959	23	2.0	22	86	4	61	13	11	25	50	1.75
4270707--4270765	27	2.2	27	82	11	68	45	20	16	16	1.85
4270761--4270985	27	8.4	27	84	4	276	44	20	17	17	1.87
4270767--4270985	81	2.7	81	92	0	350	43	20	18	17	1.88
4271331--4271389	30	1.9	31	96	3	111	22	23	25	28	1.99
4284352--4284376	12	2.1	12	100	0	50	0	24	0	76	0.80
4284499--4284523	13	1.9	13	100	0	50	0	52	0	48	1.00
4285306--4285568	27	9.8	27	87	4	318	44	19	17	17	1.87
4285261--4285354	45	2.1	44	82	2	107	43	22	18	15	1.87
4285304--4285573	54	5.0	54	85	6	352	44	19	18	17	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4285304--4285568	81	3.3	80	87	3	354	44	19	18	17	1.87
4298218--4298274	28	2.0	28	89	0	87	49	19	5	26	1.69
4298413--4298556	29	5.0	29	76	3	146	24	25	12	38	1.90
4298413--4298523	58	1.9	58	92	3	188	23	26	12	37	1.90
4298415--4298556	58	2.4	58	83	4	187	24	25	11	38	1.90
4305728--4305812	29	2.9	28	84	6	116	23	24	15	36	1.93
4308433--4308496	30	2.1	30	91	0	101	29	34	20	15	1.94
4309576--4309610	18	1.9	18	94	0	61	45	5	11	37	1.64
4310766--4311034	143	1.9	143	94	1	477	24	12	23	40	1.88
4313080--4313132	20	2.7	20	82	5	63	28	18	5	47	1.72
4314255--4314523	143	1.9	143	92	1	459	24	11	22	41	1.87
4316320--4316352	17	1.9	17	93	0	57	33	6	33	27	1.81
4316321--4316360	17	2.4	17	86	0	53	35	10	27	27	1.89
4317257--4317309	20	2.7	20	82	5	63	28	18	5	47	1.72
4318775--4318816	10	4.4	10	76	11	52	42	21	9	26	1.83
4325741--4326537	132	6.0	132	92	0	1245	26	23	18	31	1.97
4326522--4326847	46	7.1	46	88	1	467	27	28	16	26	1.97
4326522--4326847	91	3.6	91	87	3	476	27	28	16	26	1.97
4326522--4326847	137	2.4	138	88	1	485	27	28	16	26	1.97
4328794--4328821	6	4.7	6	100	0	56	0	14	0	85	0.59
4328933--4328966	15	2.3	15	89	0	50	11	5	2	79	1.02
4332209--4332247	16	2.4	16	82	0	51	51	2	10	35	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4336376--4336425	20	2.5	21	80	9	68	46	16	6	32	1.71
4341958--4342224	27	9.9	27	87	4	353	26	17	17	38	1.92
4344539--4344816	35	7.8	35	76	6	216	22	24	14	38	1.91
4344586--4344670	41	2.1	41	93	4	145	23	29	7	40	1.81
4344539--4344816	105	2.6	111	81	5	309	22	24	14	38	1.91
4344809--4344843	18	1.9	18	88	11	54	31	17	2	48	1.61
4344827--4344907	35	2.3	35	89	0	117	27	22	11	39	1.87
4344739--4344904	88	1.9	88	84	0	224	25	22	13	38	1.91
4345438--4345489	24	2.2	24	86	6	70	36	3	7	51	1.49
4345651--4345725	38	2.0	38	97	0	141	29	13	22	34	1.92
4353431--4353455	13	1.9	13	100	0	50	68	8	8	16	1.38
4354242--4354302	21	2.9	20	73	14	52	37	3	1	57	1.25
4366671--4366743	19	4.2	19	70	25	79	38	5	20	35	1.76
4377344--4377416	19	4.2	19	70	25	79	38	5	20	35	1.76
4380281--4380321	18	2.2	20	82	8	50	34	2	7	56	1.40
4384090--4384130	18	2.2	20	82	8	50	34	2	7	56	1.40
4387938--4387976	16	2.4	17	86	4	53	79	7	0	12	0.93
4388081--4388114	11	3.1	11	95	0	59	0	50	0	50	1.00
4388598--4388631	6	5.5	6	93	6	59	32	0	14	52	1.42
4388745--4388777	3	11.0	3	93	0	57	33	3	0	63	1.10
4388981--4389112	64	2.1	64	83	11	164	37	4	2	56	1.33
4389043--4389102	20	3.0	18	76	21	57	35	5	1	58	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4389460--4389554	38	2.5	37	78	13	97	36	12	1	49	1.48
4391619--4391662	19	2.3	20	84	7	56	27	20	11	40	1.86
4395822--4395954	42	3.1	42	64	18	112	27	26	22	24	2.00
4395769--4396115	86	4.1	86	91	1	529	25	22	24	26	2.00
4396064--4396468	132	3.1	133	95	1	717	27	19	23	29	1.98
4396306--4396397	45	2.0	45	81	4	105	26	19	25	29	1.99
4396405--4396563	45	3.4	45	67	17	124	29	16	23	29	1.97
4396239--4396699	229	2.0	228	94	2	800	28	19	22	29	1.98
4396371--4396927	94	6.0	94	71	13	367	28	19	22	29	1.98
4396535--4396728	46	4.3	46	64	15	143	25	19	24	30	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