genome.fa.s25.2.7.7.80.10.50.1000.178.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  178  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)
52305356--52305635	117	2.4	119	92	5	464	48	4	2	44	1.37
52305391--52305575	61	3.1	59	70	22	172	48	6	2	42	1.43
52305598--52305634	16	2.2	17	86	13	51	54	0	2	43	1.14
52305350--52305649	61	5.2	52	67	24	169	49	4	2	44	1.35
52305574--52305857	91	3.0	97	85	10	285	48	3	2	45	1.33
52305691--52305732	18	2.3	18	88	8	59	54	2	0	42	1.13
52305676--52305818	44	3.2	43	69	21	123	50	2	2	45	1.25
52305642--52305857	91	2.4	91	92	1	362	47	3	2	45	1.35
52305691--52305842	47	3.3	46	72	16	161	50	3	1	44	1.29
52309729--52309803	23	3.3	23	80	14	93	53	21	8	17	1.69
52309902--52309946	18	2.5	18	92	0	81	57	20	8	13	1.62
52314293--52314343	19	2.6	19	81	9	59	52	7	0	39	1.30
52318672--52318711	3	13.3	3	100	0	80	32	0	0	67	0.91
52326777--52326803	2	13.5	2	100	0	54	48	0	51	0	1.00
52337054--52337096	18	2.4	18	100	0	86	55	4	0	39	1.20
52346113--52346143	5	6.2	5	92	0	53	22	0	58	19	1.40
52346511--52346573	30	2.1	30	90	0	99	57	12	3	26	1.51
52348900--52348944	23	1.9	24	86	4	65	40	2	2	55	1.24
52353328--52353361	17	2.0	17	94	0	59	11	8	41	38	1.73
52356210--52356253	20	2.3	19	80	7	52	47	0	13	38	1.43
52356890--52356945	26	2.2	26	83	3	69	17	26	17	37	1.93
52358210--52358251	15	2.6	16	81	14	50	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52358217--52358251	15	2.2	17	90	10	56	48	0	0	51	1.00
52363699--52363736	13	3.0	13	80	3	51	71	2	26	0	1.00
52366960--52367024	29	2.2	30	81	8	71	30	1	4	63	1.24
52369570--52369710	51	2.8	50	83	3	176	23	17	27	31	1.97
52369790--52369843	23	2.5	22	78	21	60	42	0	20	37	1.52
52370275--52370310	16	2.2	16	90	0	54	41	2	0	55	1.14
52370314--52370350	16	2.2	18	85	9	51	72	5	5	16	1.21
52370389--52370425	16	2.3	17	86	9	51	75	5	18	0	0.99
52379001--52379094	33	2.8	33	77	12	84	34	12	24	28	1.92
52379141--52379217	33	2.3	32	80	6	82	33	15	22	28	1.94
52393032--52393080	25	2.0	25	84	11	66	36	10	2	51	1.48
52398793--52399019	36	6.0	36	84	9	274	37	11	19	31	1.88
52398757--52399062	82	3.9	81	83	8	409	36	12	20	30	1.90
52402854--52402887	15	2.2	16	94	5	61	47	11	0	41	1.40
52416444--52416720	70	3.8	70	82	9	324	27	11	18	42	1.85
52416466--52416720	23	10.6	23	70	14	131	27	12	18	41	1.86
52416450--52416732	148	1.9	147	84	5	383	27	12	19	40	1.87
52417138--52417233	30	3.0	30	71	20	79	31	5	2	61	1.29
52426059--52426110	9	5.5	10	80	15	58	38	28	11	21	1.88
52426059--52426107	20	2.6	19	90	6	73	38	30	12	18	1.87
52426117--52426214	17	5.4	17	68	13	70	51	13	2	33	1.53
52426108--52426239	37	3.6	37	91	1	203	50	13	3	33	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52426108--52426197	18	4.8	19	68	13	62	48	14	2	34	1.56
52428533--52428574	20	2.1	20	100	0	84	66	0	4	28	1.12
52429049--52429104	24	2.4	24	77	19	64	33	1	0	64	1.04
52430099--52430139	19	2.2	19	100	0	82	51	0	26	21	1.48
52431296--52431511	50	4.3	50	76	5	188	35	18	26	19	1.95
52431369--52431533	50	3.3	50	76	8	165	37	18	26	17	1.93
52431293--52431517	25	9.0	25	68	8	127	35	18	26	19	1.95
52431369--52431534	25	6.6	25	72	5	102	37	18	26	17	1.93
52438392--52438600	92	2.3	91	85	5	260	44	3	4	46	1.42
52438654--52438864	66	3.4	63	69	21	192	42	3	6	48	1.44
52438623--52438908	120	2.4	120	94	3	488	43	2	4	48	1.39
52438737--52438771	18	2.0	17	88	5	52	45	0	0	54	0.99
52438857--52438891	18	2.0	17	88	5	52	45	0	0	54	0.99
52438845--52439160	156	2.0	157	95	0	571	47	5	3	43	1.41
52439013--52439047	18	2.0	17	88	5	52	45	0	0	54	0.99
52439013--52439070	16	3.6	16	78	21	52	44	0	1	53	1.10
52445141--52445186	20	2.2	21	84	3	58	34	10	19	34	1.87
52445987--52446032	21	2.2	21	88	0	65	56	17	21	4	1.58
52448953--52448981	6	4.8	6	100	0	58	82	0	0	17	0.66
52452664--52452703	21	1.9	21	94	0	71	17	35	17	30	1.93
52455601--52455640	17	2.4	17	88	12	57	10	2	15	72	1.21
52455905--52456527	44	13.8	46	70	12	306	28	22	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52455905--52456527	45	13.8	45	69	14	210	28	22	17	30	1.97
52456175--52456433	89	2.9	89	83	0	340	29	23	16	30	1.96
52457990--52458187	50	3.8	50	77	6	164	23	27	21	28	1.99
52460916--52461100	46	4.0	46	90	0	289	28	27	9	34	1.88
52462329--52462376	17	2.9	17	90	3	71	54	18	0	27	1.44
52470368--52470507	46	3.0	46	93	0	244	35	8	26	29	1.86
52480473--52480526	27	2.0	26	82	10	65	25	3	20	50	1.65
52499582--52499614	15	2.2	15	89	10	50	36	0	18	45	1.49
52502865--52502912	20	2.4	20	92	0	78	25	0	8	66	1.19
52507000--52507181	43	4.2	43	82	2	204	32	23	16	28	1.96
52513215--52513562	47	7.0	47	74	22	261	33	0	20	45	1.51
52513016--52513636	218	2.9	216	86	9	835	33	0	20	45	1.54
52513045--52513501	116	4.0	116	84	11	619	32	0	21	46	1.51
52513014--52513746	9	81.3	9	69	16	335	34	0	19	45	1.56
52513488--52513636	53	2.7	53	83	11	194	36	1	18	44	1.58
52513663--52513787	18	6.9	18	71	12	103	37	0	16	45	1.53
52513941--52514232	73	4.0	74	93	3	500	48	7	9	34	1.65
52513941--52514232	149	2.0	146	93	3	496	48	7	9	34	1.65
52514370--52514518	66	2.3	66	86	2	210	51	11	2	34	1.52
52516630--52516677	24	2.0	24	84	8	62	54	0	37	8	1.31
52518395--52518693	124	2.4	125	84	4	381	32	19	15	32	1.93
52518618--52518786	82	2.0	85	84	5	220	38	17	11	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52518894--52518997	14	7.5	14	75	10	97	41	37	0	21	1.53
52518923--52519099	7	25.3	7	73	8	92	42	35	0	21	1.57
52518894--52518998	21	5.0	21	76	10	99	40	38	0	20	1.53
52518932--52518983	20	2.5	20	84	3	68	42	42	0	15	1.47
52518923--52519199	105	2.6	106	81	7	312	42	34	1	22	1.61
52519203--52519243	15	2.8	15	81	3	57	46	26	2	24	1.65
52522232--52522279	20	2.3	21	75	10	55	22	0	12	64	1.27
52522896--52522948	23	2.3	23	83	9	63	66	3	1	28	1.20
52554971--52555023	27	2.0	26	88	3	79	26	11	26	35	1.90
52563154--52563223	16	4.4	16	90	0	104	38	2	32	25	1.71
52563205--52563293	44	2.0	46	86	4	128	28	5	28	38	1.79
52563483--52563512	15	1.9	16	93	6	53	50	6	0	43	1.28
52563637--52563799	38	4.2	38	64	18	91	52	4	1	41	1.31
52563722--52563751	15	1.9	16	93	6	53	50	6	0	43	1.28
52563450--52563878	119	3.6	118	95	1	759	51	3	1	42	1.31
52563831--52564060	47	5.0	46	69	17	165	46	4	2	46	1.38
52563791--52564060	91	3.0	91	92	1	436	46	4	2	46	1.35
52566624--52566653	15	2.0	15	100	0	60	26	20	20	33	1.97
52567775--52567835	21	2.9	21	82	0	68	22	34	27	14	1.94
52571348--52571379	17	1.9	16	93	6	55	75	3	0	21	0.95
52577665--52577769	21	5.0	21	68	4	68	17	20	19	42	1.89
52577633--52577789	42	3.7	42	82	0	179	17	20	18	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52577712--52577784	21	3.5	21	75	5	67	16	27	17	38	1.91
52579982--52580020	20	1.9	21	89	5	62	69	0	10	20	1.17
52588072--52588105	6	5.7	6	92	0	59	17	55	14	11	1.68
52591956--52592008	27	2.0	27	96	0	97	15	3	11	69	1.31
52593513--52593728	51	4.3	51	93	0	362	27	24	16	31	1.96
52594250--52594341	43	2.1	43	82	4	105	30	33	16	19	1.94
52594288--52594436	43	3.5	43	80	4	158	27	30	15	26	1.96
52599734--52599776	19	2.2	20	87	4	61	13	2	4	79	1.00
52600148--52600189	7	6.0	7	82	0	57	28	50	0	21	1.49
52600150--52600189	14	2.9	14	96	0	71	30	47	0	22	1.52

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