genome.fa.s26.2.7.7.80.10.50.1000.130.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_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  130  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)
40076411--40076498	26	3.4	26	95	0	149	20	27	28	23	1.99
40078272--40078320	19	2.5	19	90	3	71	71	2	0	26	0.97
40086555--40086597	20	2.2	20	87	8	61	48	0	0	51	1.00
40095421--40095479	31	1.9	31	96	0	109	37	10	28	23	1.88
40101008--40101085	19	3.8	20	77	14	70	60	2	0	37	1.11
40101039--40101087	24	2.0	25	92	4	82	53	2	0	44	1.12
40106111--40106135	13	1.9	13	100	0	50	8	0	24	68	1.16
40107118--40107339	114	1.9	114	95	0	399	41	3	13	40	1.62
40107372--40107552	86	2.2	82	79	15	194	37	2	18	41	1.63
40107826--40107972	41	3.6	41	90	1	224	27	18	29	24	1.98
40111919--40111969	14	3.6	14	75	15	59	31	0	11	56	1.35
40111908--40111979	29	2.5	29	88	0	117	30	5	11	52	1.59
40116782--40116806	3	8.3	3	100	0	50	32	0	0	68	0.90
40126777--40126831	22	2.5	22	79	8	58	23	7	12	56	1.61
40129680--40129728	20	2.5	20	93	0	80	55	0	0	44	0.99
40129722--40129775	19	2.7	20	80	11	65	62	0	9	27	1.25
40130018--40130057	20	1.9	22	90	10	66	25	2	7	65	1.32
40130018--40130063	20	2.2	22	84	7	60	26	2	6	65	1.28
40130089--40130158	9	7.9	9	73	20	67	32	0	2	64	1.08
40130089--40130158	28	2.6	27	82	8	81	32	0	2	64	1.08
40131104--40131153	23	2.2	23	85	0	64	66	0	0	34	0.92
40131627--40131693	34	1.9	35	90	3	109	32	8	13	44	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40144063--40144109	12	3.8	12	83	5	58	46	8	14	29	1.74
40144890--40144940	15	3.4	14	80	17	50	3	13	3	78	1.03
40144890--40144941	27	1.9	27	84	0	68	3	15	3	76	1.07
40145320--40145373	23	2.4	23	75	3	56	77	0	9	12	0.98
40150347--40150491	12	11.6	12	70	15	71	46	10	13	28	1.76
40150353--40150406	25	2.2	25	86	6	74	50	12	12	24	1.76
40150347--40150406	13	4.8	13	83	6	70	46	11	13	28	1.78
40150391--40150435	23	2.0	22	83	12	56	51	11	13	24	1.73
40152119--40152143	10	2.5	10	100	0	50	60	28	0	12	1.32
40154038--40154078	15	2.8	15	81	3	57	4	14	2	78	1.03
40161084--40161163	23	3.3	23	78	13	97	30	23	21	25	1.99
40161089--40161163	27	3.0	25	81	12	100	30	22	21	25	1.99
40161288--40161325	17	2.2	17	86	9	51	42	21	2	34	1.67
40169476--40169500	5	5.0	5	100	0	50	80	0	0	20	0.72
40172206--40172235	15	2.0	15	100	0	60	53	0	0	46	1.00
40172207--40172311	39	2.7	39	85	5	142	51	5	2	40	1.40
40181310--40181364	17	3.2	17	77	10	58	27	29	21	21	1.99
40193299--40193345	18	2.5	19	76	16	53	57	2	2	38	1.23
40197210--40197295	43	2.0	43	93	0	145	45	18	10	25	1.81
40198344--40198397	27	2.1	26	83	13	67	57	0	3	38	1.17
40201974--40202024	7	7.3	7	77	16	52	37	0	49	13	1.43
40201983--40202021	16	2.4	17	86	8	62	38	0	51	10	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40204966--40205001	17	2.1	17	89	0	54	33	8	5	52	1.55
40208254--40208298	23	2.0	23	86	4	65	37	6	17	37	1.76
40214451--40215394	45	21.2	46	77	7	749	29	16	23	30	1.96
40214451--40215394	90	10.6	90	81	5	878	29	16	23	30	1.96
40214452--40215395	135	7.1	135	77	5	874	29	16	23	30	1.96
40214488--40215259	88	8.7	87	82	4	641	29	16	23	30	1.96
40215390--40215605	44	5.0	44	73	7	156	29	21	22	26	1.99
40215785--40216124	44	7.8	44	66	10	140	28	20	25	25	1.99
40215785--40216174	131	3.0	131	91	0	618	28	20	25	25	1.99
40216633--40216734	22	4.7	22	90	4	147	38	8	18	34	1.82
40217275--40217348	34	2.1	37	80	16	86	36	8	2	52	1.45
40217370--40217452	28	2.9	29	75	8	80	40	8	1	49	1.41
40217435--40217484	19	2.8	18	85	8	59	30	2	2	66	1.14
40218881--40218925	24	1.9	23	86	4	63	71	2	2	24	1.09
40222966--40223083	58	2.0	58	91	0	191	28	25	8	37	1.85
40229096--40229319	79	2.8	79	85	4	283	24	21	28	25	1.99
40229096--40229319	40	5.7	40	85	6	287	24	21	28	25	1.99
40229135--40229352	79	2.8	79	85	5	246	26	20	27	25	1.99
40237359--40237583	40	5.7	40	85	6	271	24	21	28	25	1.99
40237359--40237616	119	2.2	119	80	8	267	25	20	27	25	1.99
40250044--40250079	16	2.1	18	90	10	58	22	2	2	72	1.11
40251023--40251059	12	3.1	13	81	18	53	78	8	0	13	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40251171--40251240	30	2.4	30	78	7	81	22	25	28	22	1.99
40261708--40261771	24	2.7	24	90	0	92	39	4	7	48	1.53
40270040--40270713	27	25.1	27	85	2	757	38	21	20	19	1.93
40270040--40270714	80	8.4	80	84	3	703	38	21	20	19	1.93
40271110--40271226	28	4.2	28	91	2	184	23	20	22	34	1.97
40271109--40271219	56	2.0	55	96	1	204	24	20	21	33	1.97
40273564--40273646	35	2.4	35	83	4	105	25	21	22	30	1.99
40278389--40278425	16	2.2	17	90	4	58	40	8	0	51	1.32
40281002--40281118	30	3.9	30	76	5	112	34	27	13	24	1.93
40284843--40284882	14	2.9	14	88	0	62	65	0	32	2	1.06
40286165--40286469	149	2.0	149	95	0	547	31	17	17	33	1.93
40299281--40299331	25	2.0	25	92	0	84	52	19	27	0	1.46
40303235--40303271	18	2.0	19	89	5	58	54	0	40	5	1.24
40307499--40307561	30	2.1	31	85	8	85	49	11	7	31	1.67
40311712--40311868	79	2.0	79	96	0	287	35	7	20	36	1.81
40319277--40319339	30	2.1	30	88	5	92	49	9	7	33	1.64
40324126--40324185	28	2.1	28	81	0	66	28	21	26	23	1.99
40324531--40324945	54	8.0	53	77	10	340	17	17	19	44	1.87
40324529--40324945	81	5.3	81	77	11	386	17	17	19	44	1.87
40324520--40324945	27	16.3	26	76	10	230	18	17	19	44	1.87
40324752--40324945	27	7.2	27	89	0	253	18	19	19	42	1.89
40337780--40337855	30	2.5	30	82	4	100	34	28	15	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40343776--40343900	66	1.9	66	80	9	148	30	24	12	32	1.92
40346245--40346281	18	2.0	19	89	5	58	51	0	43	5	1.24
40350090--40350151	30	2.1	30	87	6	90	50	11	6	32	1.64
40353112--40353140	15	1.9	15	100	0	58	51	0	27	20	1.47
40354345--40354808	50	9.3	50	73	0	345	33	23	20	22	1.97
40354266--40354813	100	5.5	99	86	2	702	32	22	20	23	1.98
40357386--40357425	8	4.8	8	85	11	53	85	2	5	7	0.83
40359768--40360308	44	11.6	44	69	18	303	32	19	20	28	1.97
40359797--40360309	142	3.6	142	94	1	868	32	18	20	27	1.96
40360396--40360989	50	11.9	50	69	6	281	33	23	19	24	1.97
40360328--40360933	100	6.1	100	84	2	727	33	22	19	24	1.97
40362479--40362513	15	2.3	15	95	0	61	37	5	5	51	1.50
40362480--40362536	18	3.3	19	81	18	63	33	5	5	56	1.44
40362716--40362753	10	3.9	10	82	6	51	23	5	10	60	1.50
40362716--40362753	19	2.0	20	84	5	51	23	5	10	60	1.50
40362767--40362808	14	3.2	13	87	12	68	35	0	2	61	1.09
40369788--40369910	44	2.8	44	83	2	158	29	20	21	28	1.98
40370133--40370727	50	11.9	50	74	2	469	33	23	20	23	1.97
40370065--40370688	100	6.2	100	89	0	818	32	22	20	24	1.98
40372205--40372239	15	2.3	15	95	0	61	37	5	5	51	1.50
40372226--40372260	18	1.9	18	88	11	54	37	0	5	57	1.23
40380357--40380432	30	2.5	30	80	0	98	27	25	9	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40380417--40380677	30	8.7	30	67	12	126	23	22	15	38	1.92
40380471--40380757	90	3.2	88	86	3	362	24	25	14	36	1.93
40383083--40383116	7	5.0	7	89	7	52	17	0	0	82	0.67
40383083--40383109	13	2.1	13	100	0	54	14	0	0	85	0.61
40383524--40383588	14	4.6	14	78	0	58	27	18	16	36	1.93
40388834--40388864	15	2.1	15	100	0	62	35	19	0	45	1.51
40391108--40391134	11	2.5	11	100	0	54	22	7	18	51	1.70
40392532--40392726	93	2.1	92	88	4	286	44	4	4	47	1.41
40392759--40392792	17	2.0	17	94	0	59	44	5	0	50	1.26
40392759--40392797	17	2.4	16	87	8	53	43	5	0	51	1.24

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