genome.fa.s26.2.7.7.80.10.50.1000.13.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_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

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   

This is table  13  of  204  ( 24404 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)
4041566--4041607	22	1.9	22	85	0	57	40	7	9	42	1.65
4047191--4047237	24	2.0	24	87	8	69	44	21	23	10	1.83
4056692--4056728	8	4.8	8	96	3	67	54	0	0	45	1.00
4067389--4067450	29	2.2	28	91	8	99	62	16	0	20	1.32
4082708--4082741	7	4.9	7	100	0	68	44	0	0	55	0.99
4088797--4089172	46	8.6	46	81	15	413	29	21	13	36	1.91
4088978--4089059	36	2.3	36	95	0	146	31	21	8	37	1.84
4089014--4089109	50	1.9	50	97	0	183	32	22	8	36	1.84
4089060--4089136	36	2.1	36	97	0	145	29	19	12	37	1.89
4092022--4092062	17	2.3	18	87	4	57	80	0	2	17	0.82
4092304--4092352	3	16.3	3	79	8	55	59	2	2	36	1.21
4092357--4092385	12	2.4	12	100	0	58	86	6	0	6	0.72
4093519--4093702	77	2.4	77	94	1	325	33	22	15	28	1.95
4093875--4094140	44	6.0	45	79	3	281	27	22	17	31	1.97
4093860--4094138	88	3.2	88	93	1	452	28	21	18	30	1.97
4095438--4095529	47	2.0	47	86	4	132	13	25	17	44	1.84
4095448--4095540	47	2.0	47	84	0	123	12	27	17	41	1.86
4107912--4107970	29	2.0	29	86	0	82	50	1	6	40	1.39
4108207--4108245	3	13.0	3	94	0	69	64	0	2	33	1.08
4109823--4110981	132	8.8	132	95	0	2052	28	24	18	27	1.98
4109920--4110114	44	4.4	44	63	14	105	28	26	18	26	1.98
4109954--4110409	44	10.4	43	62	14	126	28	25	19	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4112112--4112162	7	7.3	7	86	8	77	17	15	0	66	1.25
4112128--4112174	21	2.2	21	77	7	51	14	19	0	65	1.26
4115052--4115093	19	2.2	19	83	8	50	40	9	21	28	1.84
4115123--4115148	13	2.0	13	100	0	52	46	15	7	30	1.74
4116914--4116972	29	2.0	29	86	0	82	50	1	6	40	1.39
4116967--4117008	16	2.6	16	81	7	50	66	0	4	28	1.12
4117209--4117253	3	15.0	3	95	0	81	64	0	2	33	1.06
4122085--4122119	7	5.0	7	100	0	70	42	14	28	14	1.84
4124542--4124620	37	2.1	37	100	0	158	24	37	7	30	1.83
4128379--4128464	21	4.0	22	80	10	106	38	23	20	17	1.93
4128379--4128465	44	2.0	41	84	6	111	37	22	20	18	1.94
4129408--4129441	16	2.1	16	88	0	50	50	2	0	47	1.16
4129605--4129636	16	2.1	16	94	5	57	40	0	0	59	0.97
4129592--4129644	27	2.1	26	86	10	74	43	0	0	56	0.99
4130557--4130617	15	3.9	15	85	8	86	31	18	6	44	1.75
4130553--4130618	32	2.1	32	100	0	132	31	18	6	43	1.74
4143510--4143548	20	2.0	20	85	9	55	76	2	17	2	1.01
4152964--4153023	30	2.0	30	100	0	120	36	3	16	43	1.65
4154506--4154657	79	1.9	79	100	0	304	30	10	21	37	1.87
4158982--4159013	17	2.0	17	88	11	50	25	15	25	34	1.95
4166665--4166734	27	2.5	28	84	6	90	42	8	0	48	1.33
4166810--4166876	27	2.5	27	87	0	89	20	28	34	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4167193--4167230	3	12.7	3	100	0	76	34	0	0	65	0.93
4170259--4170297	14	2.7	15	84	8	53	61	5	5	28	1.39
4170271--4170299	14	2.1	14	100	0	58	55	0	6	37	1.27
4171265--4171301	17	2.2	17	100	0	74	45	8	16	29	1.76
4172597--4172651	28	2.0	28	82	7	67	10	3	9	76	1.13
4172619--4172652	17	2.0	17	94	0	59	8	2	5	82	0.93
4172653--4172722	28	2.5	28	90	4	106	50	0	8	41	1.33
4172758--4172798	19	2.2	19	90	0	64	73	2	0	24	0.96
4172758--4172809	19	2.7	19	87	0	59	69	5	0	25	1.10
4174011--4174063	19	2.7	20	82	5	63	24	0	7	67	1.16
4174099--4174166	26	2.5	27	88	9	95	41	8	0	50	1.34
4174168--4174210	17	2.4	18	84	7	61	81	4	6	6	0.98
4175515--4175551	17	2.2	17	100	0	74	29	16	8	45	1.76
4176989--4177181	50	3.8	50	88	3	280	20	30	22	26	1.98
4177519--4177576	30	1.9	30	86	6	82	29	22	5	43	1.75
4178510--4179985	736	2.0	736	98	0	2844	26	25	23	24	2.00
4183468--4183519	27	1.9	27	96	0	95	19	36	26	17	1.94
4183613--4183681	27	2.5	28	90	4	115	46	1	10	42	1.46
4188137--4188619	51	9.5	51	77	5	399	30	13	25	30	1.94
4188136--4188619	102	4.8	102	87	2	600	30	13	25	30	1.94
4190544--4190742	109	1.8	107	84	6	267	36	19	15	29	1.92
4191529--4191568	21	1.9	21	89	0	62	55	2	5	37	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4193015--4194302	132	9.8	132	93	0	2137	28	23	17	30	1.97
4194629--4194686	24	2.4	24	82	5	73	31	24	13	31	1.94
4195998--4196032	13	2.8	12	87	12	52	0	0	20	80	0.72
4195997--4196038	18	2.4	17	88	4	57	0	0	21	78	0.75
4199366--4199570	111	1.9	107	86	8	288	34	18	18	29	1.94
4200110--4200139	8	3.8	8	100	0	60	66	0	0	33	0.92
4201885--4201942	26	2.3	26	80	17	68	46	15	17	20	1.84
4206493--4206525	13	2.4	14	90	5	50	27	3	33	36	1.72
4207022--4207088	34	1.9	35	93	3	118	49	8	5	35	1.59
4209895--4209932	17	2.2	18	85	4	51	10	23	2	63	1.39
4218720--4218749	15	2.0	15	93	0	51	66	16	0	16	1.25
4219371--4219423	3	17.3	3	88	11	81	67	0	0	32	0.91
4220010--4220046	17	2.2	17	90	0	56	75	2	2	18	1.04
4220336--4220375	14	2.6	16	80	15	57	10	20	27	42	1.83
4221128--4221261	60	2.2	60	84	4	180	38	6	16	38	1.75
4229784--4229814	12	2.6	12	89	0	53	29	0	0	70	0.87
4232531--4232594	32	1.9	34	84	6	87	39	7	4	48	1.53
4236787--4236825	9	4.0	10	87	12	55	0	17	0	82	0.68
4236792--4236825	16	2.1	17	94	5	61	0	14	0	85	0.60
4244160--4244189	10	3.0	10	90	0	51	30	3	10	56	1.48
4253746--4253799	19	3.1	18	76	10	58	48	0	5	46	1.25
4255064--4255372	55	5.6	54	77	7	203	31	18	8	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4258149--4258451	54	5.6	54	77	0	237	27	20	14	37	1.91
4258438--4258464	13	2.1	13	100	0	54	18	29	14	37	1.91
4258457--4258646	54	3.5	54	76	13	194	31	20	11	37	1.87
4258333--4258562	121	1.9	121	79	5	259	29	19	13	37	1.91
4258597--4259102	55	9.3	55	73	7	309	29	18	11	40	1.86
4263557--4263586	8	3.9	8	95	4	53	13	0	0	86	0.57
4265458--4265598	54	2.6	54	87	2	192	28	20	21	29	1.98
4271609--4271651	22	2.0	22	85	0	59	23	9	6	60	1.51
4274303--4274398	31	3.1	31	92	3	165	30	10	13	45	1.77
4274706--4274763	29	2.1	27	81	18	66	24	5	1	68	1.19
4275321--4275378	29	2.1	27	81	18	66	24	5	1	68	1.19
4274490--4275727	615	2.0	615	100	0	2476	28	15	15	41	1.87
4280518--4280613	31	3.1	31	91	7	158	32	8	12	46	1.71
4280916--4280974	29	2.1	27	81	12	66	23	6	1	67	1.24
4284305--4284483	36	4.7	36	81	13	223	29	21	11	37	1.89
4284377--4284531	46	3.6	46	75	16	186	28	21	12	36	1.91
4284341--4284531	82	2.3	82	93	0	319	29	21	12	37	1.89
4284262--4284483	118	1.9	115	93	4	383	29	21	12	37	1.89
4284423--4284495	36	2.0	36	89	0	110	26	20	15	38	1.92
4301508--4301542	15	2.3	16	85	14	56	28	0	0	71	0.86
4301658--4301727	10	6.9	11	69	27	57	50	0	1	48	1.09
4301664--4301726	20	3.2	20	78	14	78	50	0	1	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4309303--4309412	15	7.5	15	84	11	156	52	9	0	38	1.33
4309303--4309412	44	2.5	44	100	0	220	52	9	0	38	1.33
4309303--4309412	29	3.7	30	83	11	156	52	9	0	38	1.33
4309881--4309941	13	4.7	13	72	0	50	37	26	8	27	1.85
4309877--4309941	26	2.5	25	75	7	67	36	24	7	30	1.84
4320028--4320096	3	22.3	3	74	21	54	33	2	2	60	1.26
4321904--4321961	29	2.0	30	86	3	82	25	24	31	18	1.98
4327115--4327155	21	2.0	21	100	0	82	58	24	4	12	1.53
4330511--4330577	34	1.9	35	87	3	100	31	8	14	44	1.76
4333634--4333702	27	2.5	27	86	6	95	40	10	1	47	1.46

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