genome.fa.s25.2.7.7.80.10.50.1000.130.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_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  130  of  196  ( 23409 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)
38877652--38877761	27	4.1	26	73	10	89	45	0	1	52	1.11
38881399--38881451	26	2.0	26	82	7	63	47	1	1	49	1.23
38882234--38882259	7	3.7	7	100	0	52	15	53	0	30	1.42
38884352--38884377	7	3.7	7	100	0	52	15	53	0	30	1.42
38886470--38886495	7	3.7	7	100	0	52	15	53	0	30	1.42
38892300--38892437	46	3.0	46	96	0	249	35	8	27	28	1.86
38898440--38898482	20	2.2	20	86	0	59	48	2	6	41	1.43
38898912--38898975	3	22.3	3	76	9	53	56	1	6	35	1.34
38900204--38900395	41	4.5	41	67	10	125	28	19	21	29	1.98
38900114--38900395	129	2.2	129	92	0	474	28	20	20	30	1.98
38900435--38900817	51	7.6	50	73	8	287	23	21	22	32	1.98
38900406--38900765	100	3.6	100	85	0	418	23	22	22	31	1.99
38900535--38900815	151	1.9	151	88	3	431	23	22	23	31	1.99
38900406--38900827	50	8.4	50	74	4	321	23	21	22	32	1.98
38907073--38907117	22	2.0	22	82	0	54	48	4	6	40	1.49
38907086--38907167	30	2.6	32	76	11	87	51	3	7	37	1.48
38907329--38907366	15	2.5	15	100	0	76	42	10	15	31	1.81
38907326--38907371	15	2.7	18	77	22	62	41	8	15	34	1.78
38907420--38907450	12	2.6	12	100	0	62	61	0	6	32	1.21
38916554--38916615	30	2.1	30	90	0	97	24	3	12	59	1.48
38916739--38916771	11	2.9	12	86	13	52	66	0	0	33	0.92
38918137--38918182	24	1.9	24	82	8	58	69	6	4	19	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38925322--38925346	3	8.3	3	100	0	50	64	0	0	36	0.94
38928086--38928233	74	2.0	73	96	2	271	35	14	25	25	1.94
38929420--38929510	19	4.8	19	91	0	146	39	8	13	38	1.75
38929420--38929534	38	2.9	38	89	5	167	38	7	13	40	1.74
38929715--38929759	23	2.0	23	81	0	54	22	0	15	62	1.33
38929987--38930022	3	11.7	3	88	5	54	30	0	0	69	0.89
38929988--38930014	13	2.1	13	100	0	54	29	0	0	70	0.88
38929987--38930022	16	2.3	16	95	4	65	30	0	0	69	0.89
38935276--38935313	20	1.9	21	89	10	62	81	0	7	10	0.87
38936521--38936663	44	3.3	43	69	5	126	24	25	25	24	2.00
38936382--38936961	88	6.6	88	87	2	795	28	27	23	20	1.99
38936565--38936702	44	3.1	44	65	8	100	25	28	23	21	1.99
38936381--38936961	265	2.2	264	88	1	833	28	27	23	20	1.99
38936378--38936950	177	3.2	177	88	1	835	29	27	23	20	1.99
38936958--38937059	44	2.3	45	89	3	163	24	19	24	31	1.98
38936979--38937082	44	2.4	44	83	6	122	28	14	27	28	1.95
38937576--38937907	45	7.6	45	71	12	149	29	19	24	27	1.98
38937446--38937784	44	7.8	44	70	11	162	30	17	22	28	1.97
38937431--38937824	217	1.8	217	88	0	608	30	18	23	28	1.97
38937443--38937964	217	2.4	217	81	3	498	30	18	22	27	1.98
38938461--38938533	19	3.8	19	100	0	146	36	10	16	35	1.84
38938461--38938556	19	4.7	22	92	5	102	36	9	16	37	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38938735--38938779	23	2.0	23	81	0	54	22	0	17	60	1.37
38939008--38939046	3	12.7	3	83	5	51	28	0	0	71	0.86
38939009--38939046	13	3.0	13	92	3	60	26	0	0	73	0.83
38941184--38941229	19	2.4	19	96	0	83	34	2	17	45	1.61
38942247--38942293	25	1.9	24	82	4	58	40	2	10	46	1.50
38942691--38942865	42	4.2	42	88	0	244	31	18	21	28	1.97
38950885--38951029	42	3.5	42	87	0	182	33	17	19	28	1.95
38953356--38953399	17	2.6	17	96	3	81	36	18	15	29	1.92
38956627--38956651	13	1.9	13	100	0	50	28	0	0	72	0.86
38966424--38966476	25	2.2	25	82	3	72	60	1	0	37	1.08
38966560--38966632	28	2.5	30	82	10	89	52	9	1	36	1.43
38967436--38967491	24	2.3	26	81	12	73	58	3	1	35	1.26
38970257--38970297	21	1.9	22	90	5	66	58	0	0	41	0.98
38980081--38980319	41	5.8	41	88	6	299	27	20	24	28	1.99
38987237--38987475	41	5.8	41	88	6	299	27	20	24	28	1.99
38988581--38988674	26	3.8	24	82	13	102	30	17	26	25	1.97
38988581--38988674	49	1.9	49	82	8	120	30	17	26	25	1.97
38996444--38996500	21	2.7	21	79	20	73	64	5	1	28	1.25
38997423--38997482	19	3.2	18	72	21	52	63	1	5	30	1.25
39005502--39005549	15	3.2	15	78	0	60	20	14	20	43	1.87
39005496--39005572	30	2.6	30	82	0	100	24	15	16	42	1.87
39006144--39006188	18	2.6	17	83	10	65	28	2	0	68	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39010242--39010277	15	2.5	14	86	8	54	44	8	0	47	1.33
39012417--39012480	29	2.2	31	83	8	80	28	7	6	57	1.51
39013090--39013143	16	3.1	17	81	13	56	35	0	0	64	0.94
39014566--39014628	7	8.9	7	79	10	74	1	1	12	84	0.78
39014563--39014629	15	4.6	14	76	12	73	1	1	11	85	0.75
39014563--39014627	6	10.7	6	80	19	64	1	1	12	84	0.76
39014564--39014628	26	2.6	24	85	7	85	1	1	12	84	0.76
39032483--39032512	15	2.0	15	100	0	60	20	6	26	46	1.75
39037251--39037297	19	2.5	19	100	0	94	14	44	19	21	1.86
39039162--39039223	30	2.0	31	96	3	117	30	6	9	53	1.59
39049341--39049404	26	2.4	27	78	5	67	48	3	7	40	1.48
39122622--39122782	21	8.0	20	73	19	104	54	1	3	41	1.24
39122642--39122666	12	2.1	12	100	0	50	52	0	0	48	1.00
39122627--39122739	40	2.8	40	77	11	133	49	1	2	46	1.26
39122632--39122765	10	13.5	10	69	21	86	54	1	2	41	1.22
39122730--39122785	22	2.5	23	85	8	89	60	0	3	35	1.14
39122714--39122782	19	3.3	21	80	10	79	56	0	4	39	1.19
39122802--39122970	10	16.6	10	68	12	87	36	3	2	57	1.29
39122854--39122989	30	4.5	29	73	10	103	36	5	0	58	1.26
39126907--39126982	23	3.3	23	96	0	143	31	26	21	21	1.98
39127069--39127097	8	3.6	8	100	0	58	34	27	13	24	1.93
39127202--39127240	18	2.2	17	86	13	53	46	20	0	33	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39134240--39134315	23	3.3	23	96	0	143	31	26	21	21	1.98
39134402--39134430	8	3.6	8	100	0	58	34	27	13	24	1.93
39134535--39134573	18	2.2	17	86	13	53	46	20	0	33	1.51
39136686--39136735	21	2.4	21	83	3	66	10	30	30	30	1.90
39140489--39140524	11	3.3	11	92	7	56	63	0	0	36	0.94
39140655--39140690	16	2.2	16	100	0	72	50	5	5	38	1.49
39141573--39141598	13	2.0	13	100	0	52	84	0	15	0	0.62
39147889--39147942	26	2.1	26	89	6	83	46	0	5	48	1.25
39150466--39150605	46	3.0	46	90	2	210	30	25	7	36	1.84
39152006--39152132	44	2.9	43	76	13	152	23	18	27	30	1.97
39158573--39158843	43	6.3	42	86	1	283	30	26	17	25	1.97
39160018--39160102	40	2.1	40	84	4	109	49	14	5	30	1.66
39160168--39160447	86	3.2	86	88	3	393	42	17	7	31	1.78
39164082--39164138	14	3.9	14	79	9	53	40	36	0	22	1.55
39164095--39164201	7	15.0	7	71	7	54	44	32	0	21	1.59
39164095--39164206	14	7.9	14	72	9	75	45	31	0	22	1.58
39164252--39164300	7	6.9	7	82	13	55	51	30	0	18	1.47
39164338--39164391	7	7.6	7	81	4	63	51	27	0	20	1.47
39164402--39164435	14	2.4	14	90	0	50	44	29	0	26	1.55
39164755--39164984	41	5.7	41	82	4	234	32	23	19	24	1.98
39170422--39170456	18	1.9	18	94	0	61	20	25	31	22	1.98
39170408--39170472	30	2.2	30	82	0	76	24	26	24	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39170458--39170492	6	5.8	6	100	0	70	34	31	17	17	1.93
39172566--39172601	18	1.9	19	88	5	56	75	2	2	19	1.06
39178569--39178604	18	2.0	18	88	0	54	25	8	19	47	1.77
39180597--39180638	21	2.0	22	95	4	77	35	28	26	9	1.88
39180666--39180693	8	3.5	8	100	0	56	21	35	14	28	1.92
39180863--39180896	16	2.1	16	94	0	59	38	11	11	38	1.79
39181693--39181835	71	2.0	71	100	0	286	35	20	16	26	1.94
39187128--39187200	34	2.1	34	97	0	137	43	24	10	20	1.84
39192342--39192383	9	4.4	10	82	8	52	28	0	4	66	1.12
39201774--39201802	6	4.8	6	100	0	58	51	17	13	17	1.76

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