genome.fa.s20.2.7.7.80.10.50.1000.180.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  180  of  199  ( 23844 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)
52327025--52327074	21	2.5	20	87	9	66	54	6	8	32	1.54
52327188--52327326	69	2.0	69	100	0	278	48	10	2	38	1.52
52347382--52347459	18	4.4	18	72	13	65	34	1	2	61	1.18
52348631--52348678	20	2.4	20	96	0	87	39	4	25	31	1.74
52354456--52354498	18	2.4	18	80	0	50	11	37	2	48	1.52
52356325--52356371	20	2.3	21	82	17	64	36	0	8	55	1.31
52356325--52356376	19	2.7	20	85	14	65	32	0	7	59	1.26
52358257--52358285	10	2.7	11	89	10	51	34	0	0	65	0.93
52358260--52358313	10	5.9	10	77	16	55	37	0	1	61	1.07
52359161--52359227	26	2.6	25	79	9	64	56	2	0	40	1.14
52359160--52359227	25	2.6	25	77	11	66	55	4	0	39	1.20
52362198--52362241	21	2.1	21	86	0	61	15	4	45	34	1.67
52362924--52362953	4	7.5	4	92	0	51	70	3	0	26	1.03
52363034--52363075	19	2.2	19	83	8	50	66	0	11	21	1.23
52363091--52363133	4	10.8	4	79	0	50	67	0	4	27	1.10
52368509--52368620	24	4.4	27	75	10	89	32	20	25	21	1.98
52370572--52370615	23	1.9	22	82	17	54	36	25	0	38	1.56
52370660--52370753	45	2.1	45	93	0	161	30	24	19	25	1.98
52370755--52370931	51	3.5	51	73	12	184	32	26	15	24	1.96
52374546--52374596	23	2.3	21	78	12	57	35	23	21	19	1.96
52374551--52374595	23	2.0	23	86	0	63	40	22	20	17	1.92
52375592--52375631	6	6.7	6	83	11	55	0	20	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52375592--52375631	18	2.2	18	91	8	64	0	20	0	80	0.72
52375653--52375707	20	2.7	21	80	11	69	1	16	5	76	1.06
52375734--52375797	8	7.9	8	76	23	55	60	0	1	37	1.06
52375746--52375801	5	11.4	5	96	3	105	60	0	0	39	0.97
52382070--52382265	25	7.8	25	71	10	96	35	17	26	20	1.95
52382069--52382166	24	4.0	25	74	9	85	34	20	26	18	1.95
52393109--52393150	21	2.0	21	90	0	66	30	14	9	45	1.77
52393105--52393151	21	2.2	21	80	3	58	34	17	8	40	1.79
52395064--52395092	3	9.7	3	100	0	58	65	0	0	34	0.93
52407051--52407152	20	5.1	20	78	2	75	40	18	26	14	1.89
52413325--52413358	16	2.0	18	88	11	54	23	0	20	55	1.43
52415460--52415557	28	3.5	28	90	2	153	37	11	2	48	1.50
52415622--52415699	27	2.9	27	81	5	88	28	21	28	21	1.99
52415773--52415848	19	4.1	18	84	5	98	38	9	0	52	1.33
52415778--52415848	37	1.9	37	97	0	133	40	9	0	49	1.36
52416837--52416918	19	4.1	20	71	12	60	36	2	4	56	1.34
52418359--52418419	13	4.8	13	79	2	70	37	24	6	31	1.81
52423764--52423788	13	1.9	13	100	0	50	0	12	0	88	0.53
52429114--52429146	13	2.4	14	90	5	50	54	3	0	42	1.15
52430160--52430209	15	3.1	16	74	20	50	54	0	0	46	1.00
52432178--52432244	34	1.9	35	87	3	100	44	13	8	32	1.75
52432617--52432667	27	1.9	26	88	11	77	47	3	5	43	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52436571--52436637	24	2.8	24	80	11	66	32	0	5	61	1.20
52442968--52443019	8	6.6	8	73	4	52	67	0	3	28	1.08
52442966--52443060	31	3.0	31	75	9	86	60	0	6	33	1.22
52443271--52443358	32	2.7	32	78	1	86	67	2	5	25	1.25
52456226--52456268	20	2.1	21	95	4	79	41	0	34	23	1.55
52457728--52457752	13	1.9	13	100	0	50	8	0	8	84	0.79
52457766--52457816	22	2.3	23	82	6	68	17	9	11	60	1.57
52457774--52457822	22	2.2	22	82	7	55	18	10	10	61	1.55
52458744--52458768	12	2.1	12	100	0	50	44	8	8	40	1.63
52460015--52460058	21	2.1	21	91	0	70	31	27	13	27	1.94
52460052--52460109	7	8.4	7	82	3	73	41	43	1	13	1.55
52485827--52485890	33	2.0	32	90	3	101	39	25	9	26	1.86
52486109--52486263	41	3.8	41	96	0	276	27	22	21	29	1.99
52490614--52490655	21	2.0	21	86	13	59	61	4	0	33	1.17
52491453--52491534	26	3.2	26	73	14	80	56	2	0	41	1.13
52492528--52492607	24	3.1	24	79	18	74	56	1	1	41	1.15
52494753--52494877	50	2.5	51	79	10	150	22	27	22	28	1.99
52502271--52502295	5	5.0	5	100	0	50	40	0	0	60	0.97
52503316--52503417	41	2.5	41	79	7	107	34	18	22	24	1.96
52503501--52503629	40	3.2	39	82	5	141	31	20	22	25	1.98
52503991--52504032	14	3.0	14	82	0	57	19	0	30	50	1.48
52505113--52505197	43	2.1	40	82	10	102	29	21	9	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52509181--52509471	43	6.7	43	75	7	207	27	15	23	33	1.95
52509207--52509471	86	3.1	85	78	9	234	27	15	23	33	1.95
52510872--52510909	20	2.0	20	89	5	60	36	0	5	57	1.21
52515049--52515128	42	1.9	42	92	0	133	30	25	22	22	1.99
52515049--52515173	42	2.9	43	81	10	132	32	21	21	24	1.98
52515535--52515588	21	2.6	21	84	0	63	5	33	20	40	1.76
52515548--52515600	21	2.5	21	84	0	70	7	35	16	39	1.78
52518855--52518932	11	6.9	11	68	25	56	51	5	5	38	1.46
52518855--52519214	34	10.3	34	68	21	219	47	4	7	39	1.53
52518893--52519011	57	2.1	57	96	1	222	47	5	9	38	1.58
52518859--52519025	91	1.8	90	84	6	230	47	4	7	39	1.53
52518952--52519264	76	4.2	76	96	2	587	46	4	7	40	1.54
52518949--52519264	149	2.1	151	96	2	591	46	4	7	40	1.54
52519389--52519527	67	2.1	67	93	2	235	44	15	4	35	1.66
52519587--52519622	16	2.2	16	95	0	63	52	8	11	27	1.65
52522236--52522310	7	10.7	7	82	5	89	44	41	1	13	1.52
52523382--52523803	114	3.7	114	96	0	763	28	22	18	30	1.97
52523382--52523875	114	4.3	113	90	3	688	27	24	17	30	1.97
52523865--52524123	113	2.3	112	81	7	272	29	23	17	29	1.97
52525349--52525396	18	2.7	18	90	0	69	72	0	0	27	0.84
52530221--52530263	22	2.0	22	81	9	52	51	0	2	46	1.13
52536980--52537012	11	2.8	12	86	9	50	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52537101--52537163	30	2.1	30	93	0	108	55	12	4	26	1.57
52548803--52548828	12	2.2	12	100	0	52	26	7	15	50	1.71
52548969--52549057	20	4.3	20	72	18	67	57	5	0	37	1.22
52548983--52549076	43	2.2	44	82	5	120	51	4	1	43	1.28
52553168--52553406	46	4.9	46	82	12	211	34	14	22	28	1.93
52553147--52553453	52	6.1	51	87	7	418	34	14	22	28	1.93
52553133--52553453	98	3.3	97	84	10	454	34	14	22	28	1.93
52553416--52553525	37	3.0	37	89	2	170	35	15	23	25	1.94
52554778--52554919	49	2.9	49	92	1	221	23	14	29	32	1.94
52558083--52558321	46	4.9	46	82	12	211	34	14	22	28	1.93
52558062--52558368	52	6.1	51	87	7	418	34	14	22	28	1.93
52558048--52558368	98	3.3	97	84	10	454	34	14	22	28	1.93
52558331--52558440	37	3.0	37	89	2	170	35	15	23	25	1.94
52561222--52561288	28	2.4	28	79	0	71	19	2	37	40	1.67
52565951--52566137	51	3.7	51	80	5	218	30	26	17	25	1.97
52565950--52566133	101	1.8	101	89	3	289	30	26	17	25	1.97
52565944--52566167	101	2.2	100	79	10	258	29	27	16	26	1.96
52574847--52574965	21	5.5	22	63	26	58	48	3	0	47	1.18
52574910--52574972	22	2.6	24	78	9	67	47	1	0	50	1.10
52574953--52575011	16	3.5	17	71	15	52	45	0	0	54	0.99
52574955--52575005	16	3.2	16	72	22	54	45	0	0	54	0.99
52575001--52575030	15	2.0	15	93	0	51	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52575182--52575244	32	2.0	32	90	0	99	25	14	9	50	1.72
52575193--52575258	32	2.2	31	81	8	73	24	15	9	51	1.72
52577206--52577243	18	2.1	18	100	0	76	55	0	0	44	0.99
52580156--52580232	27	2.9	27	94	0	127	25	22	31	20	1.98
52580541--52580604	19	3.4	19	78	4	85	35	10	1	51	1.47
52580680--52580844	82	2.0	82	98	0	321	45	10	6	38	1.63
52580913--52581008	19	5.2	19	81	9	117	50	0	12	37	1.41
52580913--52581008	37	2.6	37	96	0	174	50	0	12	37	1.41
52580920--52581013	18	5.1	18	76	11	84	50	1	11	37	1.46
52581832--52581865	7	4.9	7	96	0	59	11	17	0	70	1.16

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