genome.fa.s13.2.7.7.80.10.50.1000.14.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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  14  of  199  ( 23770 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)
4409271--4409336	33	2.0	33	96	0	123	42	18	4	34	1.70
4409750--4409970	9	24.0	9	75	11	180	44	19	0	34	1.57
4409759--4409977	56	3.9	56	94	0	375	44	18	0	35	1.56
4411219--4411315	23	4.4	21	71	13	63	54	5	4	36	1.42
4411474--4411528	20	2.8	20	80	0	65	78	3	5	12	1.06
4412794--4413102	56	5.5	56	89	5	410	45	18	0	34	1.54
4412794--4413052	109	2.4	108	90	5	394	45	18	0	35	1.53
4412890--4412975	24	3.4	24	69	19	59	47	16	0	36	1.47
4412805--4413104	9	33.0	9	71	14	172	46	18	0	34	1.55
4412805--4413125	165	2.0	163	82	8	399	46	18	0	34	1.54
4414824--4414849	12	2.2	12	100	0	52	34	7	26	30	1.85
4418876--4419099	43	5.2	43	85	4	290	32	19	22	26	1.97
4419592--4419620	12	2.3	13	94	5	51	3	13	0	82	0.79
4422596--4422621	4	6.5	4	100	0	52	50	26	0	23	1.50
4423679--4423729	15	3.4	15	71	10	50	37	0	0	62	0.95
4423668--4423729	30	2.0	31	93	3	108	40	0	1	58	1.08
4427303--4427514	111	1.9	111	84	3	284	24	32	12	30	1.92
4429156--4429322	89	1.9	87	81	9	205	38	16	9	35	1.82
4429329--4429376	2	24.0	2	100	0	96	0	50	0	50	1.00
4429374--4429400	4	6.8	4	100	0	54	22	25	0	51	1.48
4430137--4430163	4	6.8	4	100	0	54	48	25	0	25	1.52
4430182--4430249	2	34.0	2	100	0	136	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4430304--4430343	20	2.0	20	85	0	53	35	10	10	45	1.71
4430419--4430507	37	2.4	36	83	16	112	60	1	3	34	1.20
4430420--4430518	18	5.3	18	78	9	92	60	1	3	35	1.19
4430672--4430715	22	2.0	22	100	0	88	45	9	4	40	1.56
4430758--4430837	19	4.2	18	75	12	63	27	6	3	62	1.36
4430821--4430904	10	8.7	10	72	11	59	34	1	2	61	1.16
4430723--4430855	19	6.8	19	70	18	62	29	5	3	62	1.32
4430815--4430905	38	2.4	37	77	17	96	32	1	3	62	1.18
4430823--4430896	28	2.6	28	84	4	85	35	1	1	62	1.12
4432514--4432545	2	16.0	2	93	0	55	53	0	0	46	1.00
4434445--4434504	30	2.0	30	83	3	75	60	3	1	35	1.23
4435176--4435215	17	2.3	18	95	4	73	45	5	0	50	1.23
4437310--4437376	29	2.3	29	92	0	107	49	11	14	23	1.77
4440661--4441752	544	2.0	544	97	0	2067	28	14	21	35	1.92
4441928--4441953	11	2.4	11	100	0	52	53	0	7	38	1.30
4441990--4442026	5	7.2	5	93	6	65	0	43	56	0	0.99
4443502--4443534	9	3.7	9	91	0	57	39	12	18	30	1.87
4443621--4443679	29	2.0	29	93	0	100	38	11	0	49	1.40
4448577--4448613	9	4.1	9	92	0	65	45	13	10	29	1.77
4449538--4449563	5	5.2	5	100	0	52	23	19	19	38	1.93
4450921--4450972	20	2.8	18	78	21	63	51	1	1	44	1.23
4454032--4454070	16	2.5	16	87	4	53	46	7	5	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4455964--4456012	20	2.5	20	80	9	57	18	2	20	59	1.48
4461569--4461607	20	2.0	19	85	5	51	51	7	0	41	1.31
4465718--4465786	30	2.3	30	94	0	120	26	23	5	44	1.75
4465718--4465764	15	3.1	16	69	12	53	25	25	6	42	1.78
4467703--4467740	18	2.1	19	85	5	51	55	2	0	42	1.14
4468235--4468277	18	2.2	20	80	8	54	39	2	0	58	1.11
4470321--4470345	2	12.5	2	100	0	50	52	0	0	48	1.00
4475261--4475307	2	23.0	2	95	4	85	48	2	0	48	1.13
4485084--4485113	2	15.0	2	92	0	51	53	0	0	46	1.00
4486546--4486571	13	2.0	13	100	0	52	53	15	15	15	1.73
4489301--4489327	2	13.5	2	100	0	54	48	0	0	51	1.00
4493035--4493286	125	2.0	123	92	1	414	33	17	13	35	1.89
4496354--4496392	20	2.0	20	85	5	53	51	0	12	35	1.40
4496610--4496678	19	3.7	19	82	3	95	53	0	10	36	1.35
4496601--4496671	37	1.9	37	94	0	124	47	0	11	40	1.39
4496725--4496809	27	3.2	27	85	6	104	18	25	23	31	1.97
4496857--4496904	23	2.1	23	96	0	87	58	0	6	35	1.23
4501329--4501366	4	9.5	4	94	0	67	23	47	2	26	1.65
4505300--4505363	27	2.3	27	81	10	76	50	1	3	45	1.27
4506560--4506595	18	1.9	19	88	5	56	52	2	2	41	1.30
4510326--4510392	2	34.0	2	96	3	127	49	0	0	50	1.00
4510654--4510702	15	3.2	16	75	18	50	55	6	4	34	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4521791--4521957	70	2.4	70	79	12	182	34	24	19	21	1.97
4522760--4522906	54	2.8	54	92	7	243	40	8	21	29	1.84
4523714--4523758	20	2.6	16	83	16	54	44	0	24	31	1.54
4525040--4525082	22	2.0	22	90	0	68	65	2	4	27	1.25
4531138--4531181	20	2.2	20	88	8	63	0	31	0	68	0.90
4532287--4532325	19	2.0	20	85	9	55	48	5	0	46	1.24
4535668--4535705	3	12.7	3	91	0	58	2	0	28	68	1.03
4554008--4554054	20	2.3	20	88	0	67	17	10	2	70	1.26
4563790--4563816	2	13.5	2	100	0	54	48	0	0	51	1.00
4567934--4567976	19	2.2	20	84	12	54	67	0	0	32	0.91
4567934--4567975	20	2.1	20	82	8	50	69	0	0	30	0.89
4567986--4568010	2	12.5	2	100	0	50	52	0	0	48	1.00
4570195--4570525	51	6.4	51	87	5	466	28	22	15	32	1.95
4570195--4570518	109	3.0	109	88	3	493	28	22	15	33	1.95
4572239--4572273	17	2.0	18	88	5	54	17	0	17	65	1.27
4579710--4579743	17	2.0	17	100	0	68	52	5	5	35	1.50
4585938--4585990	18	2.8	19	82	8	63	52	5	3	37	1.43
4587377--4587411	10	3.5	10	84	0	52	77	2	2	17	1.02
4588174--4588218	20	2.2	21	88	4	65	51	8	0	40	1.33
4587984--4588416	154	2.8	154	83	8	530	43	10	4	42	1.57
4588569--4588960	153	2.6	152	82	5	488	45	8	3	41	1.53
4588721--4588765	20	2.2	21	88	4	65	51	8	0	40	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4588012--4589099	546	2.0	545	95	2	1952	42	11	8	37	1.71
4588875--4588919	20	2.3	19	85	7	63	44	6	0	48	1.29
4593514--4593782	122	2.2	120	90	3	416	35	11	6	46	1.66
4597737--4597805	30	2.4	29	83	9	88	44	21	8	24	1.80
4600650--4600683	18	1.9	18	88	5	52	55	5	2	35	1.39
4601287--4601337	21	2.3	23	75	21	56	45	0	1	52	1.12
4607289--4607346	11	5.2	11	81	4	53	12	6	10	70	1.33
4607271--4607346	34	2.2	34	85	0	98	10	6	10	72	1.28
4608683--4608757	28	2.7	28	97	2	143	36	4	0	60	1.16
4615889--4615945	26	2.2	26	81	6	62	35	3	10	50	1.54
4622580--4622619	19	2.1	19	85	0	53	22	15	5	57	1.57
4623136--4623167	7	4.6	7	96	0	55	87	3	0	9	0.64
4628110--4628144	17	2.1	17	100	0	70	34	5	11	48	1.63
4634867--4634957	38	2.4	38	78	10	105	29	19	13	37	1.90
4640215--4640259	23	2.0	23	100	0	90	22	17	8	51	1.73
4643180--4643204	10	2.5	10	100	0	50	52	0	8	40	1.31
4643683--4643729	24	2.0	24	86	0	67	48	17	4	29	1.65
4651859--4651944	33	2.6	33	81	5	102	13	5	36	44	1.69
4675354--4675399	19	2.3	20	88	3	67	10	8	2	78	1.05
4675367--4675400	10	3.6	9	88	11	50	11	5	0	82	0.83
4676197--4676237	2	20.5	2	94	0	73	48	0	0	51	1.00
4676465--4676495	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4680641--4681134	132	3.7	132	87	1	704	29	18	23	28	1.98
4680652--4681191	132	4.1	132	83	5	628	29	18	23	28	1.98
4680652--4681194	264	2.1	264	85	3	727	28	18	23	29	1.98
4681981--4682026	19	2.3	20	88	3	67	10	8	2	78	1.05
4681994--4682027	10	3.6	9	88	11	50	11	5	0	82	0.83
4683094--4683183	44	2.1	43	83	6	110	30	10	5	54	1.56
4683188--4683230	22	2.0	22	81	9	52	30	4	0	65	1.13
4688559--4688589	14	2.2	14	94	0	53	48	12	3	35	1.58
4690774--4690836	29	2.1	31	85	11	87	49	3	0	47	1.17
4694360--4694430	25	2.8	26	72	10	76	26	26	15	30	1.96

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