genome.fa.s25.2.7.7.80.10.50.1000.193.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  193  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)
56515938--56516035	23	4.3	23	90	2	162	31	26	21	20	1.98
56515945--56516033	45	2.0	45	95	0	160	31	26	22	19	1.97
56519936--56519992	30	1.9	30	85	3	80	42	1	24	31	1.65
56520204--56520235	13	2.5	13	94	0	55	31	0	12	56	1.37
56520330--56520571	50	4.7	50	86	4	297	26	24	29	19	1.99
56520330--56520579	100	2.4	103	88	6	364	26	24	29	20	1.99
56527319--56527345	2	13.5	2	100	0	54	0	0	48	51	1.00
56538042--56538095	6	9.0	6	85	0	72	27	14	37	20	1.92
56542958--56543019	31	2.0	31	100	0	124	25	16	29	29	1.96
56544266--56544326	32	1.9	32	86	6	88	24	13	24	37	1.91
56546331--56546413	36	2.3	36	82	0	94	21	19	34	24	1.96
56547559--56547610	27	1.9	27	96	0	95	15	25	36	23	1.93
56547697--56547725	14	2.0	15	93	6	51	75	0	24	0	0.80
56547804--56547886	39	2.0	42	82	13	102	19	0	16	63	1.30
56551238--56551312	33	2.3	33	81	4	89	28	17	36	18	1.94
56551425--56551481	24	2.4	24	90	0	96	8	29	42	19	1.81
56554057--56554115	8	7.2	8	73	17	50	1	35	0	62	1.05
56554069--56554117	3	17.0	3	76	23	52	0	32	0	67	0.91
56567785--56567926	73	1.9	73	100	0	284	30	27	4	37	1.76
56573200--56573251	21	2.5	21	93	6	88	30	5	34	28	1.81
56575618--56575657	18	2.1	20	86	9	57	45	0	0	55	0.99
56588496--56588546	27	2.0	26	85	11	70	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56588492--56588561	35	2.0	35	83	10	90	60	0	0	40	0.97
56597200--56597297	50	2.0	49	86	7	137	33	11	11	43	1.76
56599386--56599508	33	3.5	33	73	19	113	19	21	28	30	1.97
56600328--56600498	85	2.0	85	97	0	324	28	18	18	35	1.94
56602236--56602414	51	3.5	50	84	5	225	30	26	18	25	1.98
56602236--56602474	51	4.8	51	76	8	210	29	27	17	25	1.97
56602228--56602469	101	2.5	100	81	6	271	29	27	17	25	1.98
56603729--56603771	9	4.8	9	91	0	68	44	16	11	27	1.82
56603726--56603771	18	2.6	18	100	0	92	45	15	10	28	1.79
56605019--56605086	26	2.5	27	86	11	95	30	0	0	69	0.89
56605026--56605093	26	2.6	25	84	9	82	26	0	1	72	0.94
56624812--56624915	52	2.0	52	90	0	163	37	7	10	44	1.68
56625236--56625304	36	1.9	36	82	5	86	21	30	2	44	1.67
56630667--56630713	21	2.2	22	92	3	78	21	19	38	21	1.94
56643611--56643641	3	10.3	3	100	0	62	0	32	0	67	0.91
56646685--56646756	36	2.0	36	91	0	117	34	19	9	36	1.85
56647764--56647804	17	2.4	17	87	0	55	65	2	2	29	1.18
56649292--56649347	16	3.4	16	87	9	69	21	0	3	75	0.96
56649293--56649348	26	2.2	26	87	3	78	21	0	3	75	0.96
56649522--56649573	20	2.5	21	79	14	63	30	3	3	61	1.32
56657226--56657314	25	3.6	25	75	11	83	16	30	20	32	1.95
56657233--56657341	50	2.2	50	79	0	119	19	29	20	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56665116--56665145	3	10.0	3	100	0	60	33	33	33	0	1.58
56671304--56671339	13	2.6	14	86	8	56	30	16	41	11	1.83
56682510--56682557	15	3.1	15	87	6	60	0	29	0	70	0.87
56702390--56702429	20	2.0	20	85	9	55	37	10	10	42	1.72
56704319--56704361	19	2.3	19	92	4	70	30	2	0	67	1.03
56716601--56716656	21	2.7	21	88	0	85	25	7	37	30	1.82
56716870--56716925	15	4.0	15	73	17	57	55	0	0	44	0.99
56716880--56716942	26	2.5	25	82	10	83	58	1	0	39	1.07
56716875--56717073	59	3.3	59	71	14	201	54	3	1	40	1.27
56716853--56717092	120	2.0	120	97	0	453	51	4	2	42	1.33
56724095--56724128	15	2.2	16	94	5	61	17	26	17	38	1.92
56724164--56724284	60	2.0	60	98	0	233	27	25	17	29	1.97
56730174--56730206	15	2.2	15	89	10	50	27	0	0	72	0.85
56730568--56730840	136	2.0	136	100	0	546	18	27	13	40	1.88
56732862--56732967	40	2.7	40	87	0	158	8	63	3	24	1.40
56736958--56737036	39	2.0	40	83	14	101	31	0	6	62	1.20
56736945--56737042	41	2.3	43	77	19	109	35	0	5	59	1.20
56736945--56737043	40	2.4	42	77	17	109	36	0	5	58	1.20
56743063--56743104	20	2.1	20	86	0	57	47	0	7	45	1.30
56743540--56743577	18	2.2	18	86	9	53	68	2	7	21	1.28
56744698--56746145	714	2.0	720	93	2	2496	32	21	10	35	1.88
56756244--56756479	118	2.0	118	100	0	472	32	12	21	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56759780--56759906	62	2.0	63	96	1	238	35	14	17	33	1.90
56763066--56763099	18	1.9	18	88	5	52	29	0	5	64	1.17
56763950--56763990	21	2.0	21	90	0	64	29	31	17	21	1.96
56764025--56764092	31	2.3	30	85	10	86	22	8	20	48	1.77
56765175--56765237	30	2.1	30	96	0	117	57	14	1	26	1.47
56765884--56765939	23	2.4	22	80	11	67	32	0	7	60	1.24
56767090--56767123	6	5.7	6	100	0	68	14	32	17	35	1.91
56769682--56769733	24	2.2	24	82	0	59	50	9	3	36	1.54
56773890--56773949	29	2.1	28	87	6	86	40	45	3	11	1.57
56775111--56775144	16	2.1	17	94	5	61	32	0	0	67	0.91
56775289--56775336	14	3.4	14	82	2	60	33	4	6	56	1.44
56776292--56776343	24	2.2	24	89	0	77	50	9	3	36	1.54
56784469--56784525	30	1.9	30	85	7	80	22	49	3	24	1.66
56800086--56800141	29	1.9	29	85	0	76	48	12	12	26	1.77
56802486--56802564	24	3.2	24	80	7	88	36	24	22	16	1.94
56802880--56802919	18	2.2	19	86	4	55	27	12	12	47	1.77
56803115--56803177	33	1.9	33	96	0	117	41	19	7	31	1.80
56806617--56806850	46	5.1	46	92	2	364	28	22	8	40	1.83
56811681--56811719	18	2.0	21	85	14	57	41	0	0	58	0.98
56816103--56816141	14	2.7	14	84	4	51	82	2	10	5	0.93
56816228--56816301	15	4.7	16	78	6	80	74	0	4	21	0.98
56816233--56816305	31	2.4	30	86	6	94	75	0	2	21	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56834951--56834977	2	13.5	2	100	0	54	48	0	0	51	1.00
56836489--56836519	3	10.3	3	100	0	62	0	32	0	67	0.91
56836848--56836897	23	2.2	22	85	3	64	56	8	6	30	1.52
56840013--56840066	26	2.1	26	82	0	63	55	9	1	33	1.42
56840060--56840146	24	3.6	23	80	13	79	63	2	4	29	1.27
56840065--56840146	25	3.3	26	75	14	82	62	2	4	30	1.29
56843717--56843799	42	2.0	42	87	0	121	40	10	26	21	1.86
56846293--56846450	50	3.1	50	87	0	235	20	31	24	24	1.98
56848567--56848599	17	1.9	17	93	0	57	54	0	6	39	1.25
56848934--56848998	20	3.3	19	78	8	67	30	1	0	67	1.00
56848946--56849005	20	2.9	20	82	9	68	30	1	1	66	1.11
56849117--56849174	19	3.1	19	79	16	59	34	8	0	56	1.30
56861637--56861720	32	2.6	32	77	9	82	32	13	3	51	1.58
56861668--56861735	33	2.1	33	82	0	82	35	11	4	48	1.60
56862727--56862767	21	2.0	21	85	9	57	65	24	2	7	1.30
56868059--56868102	24	1.9	24	86	9	65	38	0	2	59	1.10
56868166--56868326	50	2.9	58	79	16	221	43	9	5	41	1.60
56868337--56868389	23	2.3	23	83	3	63	41	3	3	50	1.38
56868873--56868911	16	2.3	18	91	8	64	79	2	17	0	0.84
56868860--56868912	23	2.3	23	81	9	63	81	1	15	1	0.87
56869629--56869669	16	2.7	15	85	7	64	43	21	2	31	1.66
56869831--56870093	44	6.0	43	78	4	258	27	17	25	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56869833--56870093	133	2.0	132	94	0	459	26	17	26	29	1.98
56870172--56870426	50	5.1	50	68	5	183	30	20	21	27	1.98
56870142--56870707	100	5.8	100	83	4	702	29	21	21	27	1.99
56870728--56871322	40	14.3	40	75	14	508	31	23	20	24	1.98
56870714--56871407	126	5.5	125	84	6	746	31	23	20	24	1.98
56870811--56871322	208	2.5	207	85	5	642	31	23	20	24	1.98
56870851--56871322	84	5.7	84	84	6	538	31	23	20	24	1.98
56870728--56871407	84	8.1	82	79	7	531	31	23	20	24	1.98
56871699--56871739	21	2.0	21	85	9	57	65	24	2	7	1.30
56874179--56874223	23	2.0	23	82	8	56	44	11	6	37	1.66

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