genome.fa.s25.2.7.7.80.10.50.1000.105.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   205   206   207   208   
          209   210   211   212   213   214   

This is table  105  of  214  ( 25680 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)
31256582--31256635	28	2.0	28	85	10	76	68	0	1	29	1.00
31257735--31257773	17	2.3	17	86	0	51	43	0	15	41	1.46
31261699--31261749	25	2.0	25	88	0	75	35	1	19	43	1.63
31269353--31269743	192	2.0	192	86	3	547	31	8	25	35	1.85
31271294--31271324	16	1.9	16	93	0	53	32	0	6	61	1.21
31275829--31275853	12	2.1	12	100	0	50	20	0	16	64	1.30
31290127--31290163	17	2.2	17	90	0	56	29	21	5	43	1.75
31302777--31302809	16	2.1	16	100	0	66	24	6	0	69	1.10
31302781--31303041	22	12.5	22	74	18	179	22	12	1	62	1.39
31302802--31302908	18	5.6	18	78	16	108	19	11	3	65	1.39
31302741--31303113	23	16.8	22	66	21	149	23	12	1	62	1.40
31302802--31303041	107	2.3	105	73	15	92	22	13	2	62	1.41
31302747--31303113	39	8.3	43	75	15	213	22	12	1	62	1.40
31302840--31303101	89	3.0	84	74	17	203	22	14	1	61	1.42
31302820--31303096	5	53.0	5	69	20	126	22	14	1	62	1.41
31302820--31303113	45	6.6	45	78	13	290	21	13	2	62	1.41
31303218--31303276	25	2.3	26	88	5	93	42	8	3	45	1.51
31309378--31309415	19	2.0	20	84	5	51	57	13	7	21	1.60
31311368--31311560	50	3.8	50	87	0	260	26	21	30	21	1.98
31324723--31324758	15	2.3	15	95	4	63	47	0	8	44	1.33
31324736--31324792	29	2.0	28	83	10	71	50	0	8	40	1.33
31328329--31328353	3	8.3	3	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31338330--31338373	21	2.1	21	95	0	79	0	15	34	50	1.45
31338725--31338819	30	3.2	29	68	11	93	26	21	4	48	1.68
31338953--31339013	18	3.4	18	77	8	63	60	3	0	36	1.13
31345996--31346032	18	2.1	18	89	0	56	70	5	0	24	1.08
31346085--31346124	13	2.9	15	78	17	50	40	0	0	60	0.97
31348631--31348684	15	3.4	15	73	14	54	37	1	18	42	1.61
31348623--31348689	33	2.0	33	94	0	116	35	2	17	43	1.65
31354737--31354912	87	2.0	87	89	0	271	35	14	30	19	1.92
31368048--31368091	22	2.0	23	86	4	63	22	40	29	6	1.80
31370346--31370561	67	3.2	68	83	5	251	36	14	23	25	1.93
31373131--31373193	32	1.9	33	90	3	101	33	4	19	42	1.72
31375920--31375948	14	2.0	15	93	6	51	89	10	0	0	0.48
31379873--31379930	30	1.9	30	82	3	71	46	8	6	37	1.61
31380593--31380627	17	2.1	17	89	10	54	40	20	5	34	1.76
31391340--31391381	15	2.7	16	82	14	52	52	2	0	45	1.13
31391349--31391390	15	2.9	15	82	10	52	52	0	0	47	1.00
31391459--31391510	15	3.6	15	80	12	56	53	1	0	44	1.11
31391338--31391635	120	2.5	121	90	5	453	48	5	3	43	1.40
31391631--31391859	92	2.5	92	83	8	236	47	3	3	45	1.36
31397387--31397521	71	1.9	72	87	3	200	37	0	14	47	1.50
31397768--31397794	13	2.1	13	100	0	54	55	7	7	29	1.55
31401557--31401743	43	4.3	43	80	4	198	21	16	29	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31401577--31401743	86	1.9	86	84	2	219	22	16	29	31	1.96
31406984--31407176	50	3.8	50	84	2	244	22	30	20	25	1.98
31409287--31409325	18	2.2	18	95	0	69	15	17	20	46	1.84
31411539--31411799	80	3.3	80	81	10	306	24	27	22	24	2.00
31411539--31411800	40	6.7	40	85	10	278	25	27	22	24	2.00
31412879--31412903	13	1.9	13	100	0	50	0	8	4	88	0.64
31426885--31427063	43	4.2	42	78	7	146	31	26	17	25	1.97
31427030--31427120	43	2.1	43	83	4	112	24	24	17	34	1.96
31432779--31432807	15	1.9	15	100	0	58	65	6	6	20	1.40
31436727--31436854	48	2.7	48	75	4	132	44	7	28	19	1.78
31448441--31448480	20	2.0	20	85	9	55	35	22	32	10	1.87
31448454--31448539	20	4.3	20	76	5	75	39	19	30	10	1.85
31450164--31450427	40	6.7	40	88	4	313	25	27	21	25	2.00
31458181--31458443	40	6.7	40	83	9	276	25	27	21	25	1.99
31473454--31473717	40	6.7	40	82	8	292	25	27	20	26	1.99
31481453--31481714	40	6.7	40	85	7	299	25	27	21	25	1.99
31481453--31481712	117	2.2	120	82	7	318	25	27	21	25	1.99
31494568--31494659	19	4.8	19	89	0	148	38	15	10	35	1.82
31494561--31494659	38	2.7	38	92	3	166	37	16	10	36	1.82
31496046--31496099	16	3.4	16	86	0	72	40	3	24	31	1.72
31498045--31498076	15	2.1	15	100	0	64	43	6	12	37	1.68
31502802--31503028	40	5.7	40	93	0	391	30	20	27	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31514140--31514170	15	2.1	15	100	0	62	51	16	0	32	1.44
31514639--31514808	59	2.9	59	97	0	313	44	9	5	40	1.61
31514819--31514860	16	2.6	16	92	0	66	42	7	2	47	1.43
31517819--31517860	19	2.2	19	86	0	57	47	19	14	19	1.82
31526138--31526171	16	2.1	16	100	0	68	29	5	17	47	1.71
31528472--31530069	531	3.0	531	98	0	3043	40	16	19	23	1.91
31533334--31533489	82	1.9	82	91	0	258	42	21	12	23	1.87
31535821--31535880	30	2.0	30	100	0	120	43	10	0	46	1.37
31542092--31542147	26	2.1	28	86	6	80	53	0	21	25	1.46
31544060--31544149	42	2.1	42	95	0	162	22	11	11	55	1.66
31544838--31544945	24	4.6	24	85	6	141	47	2	28	21	1.65
31545653--31546575	459	2.0	459	99	0	1810	24	20	26	28	1.99
31550697--31550726	14	2.2	14	94	5	53	76	0	0	23	0.78
31554310--31554356	18	2.4	19	82	13	60	21	36	6	36	1.79
31567419--31567769	41	8.6	41	89	0	486	20	19	27	32	1.97
31573420--31573603	42	4.3	42	78	4	190	20	17	30	31	1.96
31574731--31574846	10	12.3	10	64	18	52	67	4	0	28	1.10
31574732--31574839	29	3.9	27	78	10	85	67	4	0	27	1.10
31574775--31574846	29	2.6	28	84	8	94	68	5	0	26	1.12
31575029--31575086	19	2.8	22	73	21	63	29	8	1	60	1.36
31575033--31575209	96	1.8	97	81	11	220	30	6	2	60	1.35
31577646--31578342	138	5.0	138	90	2	1049	40	8	5	45	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31577646--31578342	278	2.5	276	89	3	1035	40	8	5	45	1.58
31585710--31585774	27	2.5	26	85	5	85	32	10	15	41	1.81
31589780--31589828	23	2.1	23	96	0	89	48	8	10	32	1.66
31591731--31591778	24	2.0	24	95	0	87	39	12	27	20	1.89
31592824--31592913	33	2.7	33	89	0	117	25	25	17	31	1.97
31596348--31596459	43	2.6	43	75	1	109	30	25	17	26	1.97
31604214--31604355	41	3.5	41	84	1	178	33	19	17	30	1.95
31604214--31604374	82	2.0	81	84	7	209	33	19	18	29	1.95
31606502--31606570	29	2.4	29	95	4	122	34	21	11	31	1.89
31610017--31610065	24	2.0	24	88	0	71	24	20	18	36	1.94
31610041--31610220	43	4.2	43	86	1	236	31	25	17	26	1.97
31610040--31610218	86	2.1	86	88	2	261	30	24	17	27	1.97
31614672--31614719	21	2.3	21	92	0	78	45	10	29	14	1.78
31614802--31614839	19	2.0	19	94	0	67	36	13	36	13	1.83
31616498--31616610	7	15.7	7	72	15	52	44	32	1	21	1.63
31616496--31616566	29	2.4	29	81	6	81	43	36	0	19	1.51
31616510--31616561	15	3.6	15	80	14	56	40	40	0	19	1.51
31616498--31616610	22	5.2	22	74	17	94	44	32	1	21	1.63
31616491--31616610	14	8.4	14	71	15	66	45	31	1	20	1.61
31616730--31616806	7	11.0	7	80	5	84	51	31	0	16	1.45
31616917--31617459	40	13.9	40	67	8	175	27	20	21	30	1.98
31616835--31617449	195	3.2	194	82	3	772	27	20	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31617302--31617459	80	2.0	80	84	2	210	26	19	23	30	1.98
31617305--31617470	40	4.2	40	80	6	183	25	19	22	31	1.98
31620054--31620092	11	3.5	11	82	0	51	38	53	0	7	1.30
31622520--31622548	13	2.1	14	93	6	51	68	6	0	24	1.13
31623485--31623518	11	3.1	11	100	0	68	61	8	0	29	1.26
31632520--31632588	33	2.2	31	87	10	95	20	26	21	31	1.98
31635746--31635791	24	1.9	24	82	8	58	54	10	0	34	1.36
31641920--31641996	37	2.1	37	100	0	154	31	15	23	29	1.95
31650985--31651051	23	2.8	24	80	11	75	32	17	25	23	1.97
31656133--31656378	40	6.2	40	89	2	318	29	28	19	22	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   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   205   206   207   208   
          209   210   211   212   213   214