genome.fa.s4.2.7.7.80.10.50.1000.137.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  137  of  255  ( 30512 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)
44164874--44164954	25	3.4	25	65	16	71	32	7	28	32	1.85
44165129--44165243	37	3.1	37	88	0	158	20	20	32	26	1.97
44166504--44166803	120	2.5	120	93	0	510	25	21	27	25	1.99
44166504--44166803	40	7.5	40	89	0	438	25	21	27	25	1.99
44170913--44171188	47	5.9	47	88	1	410	31	10	29	28	1.90
44170913--44171188	94	2.9	94	92	0	462	31	10	29	28	1.90
44171309--44171460	37	4.1	37	89	3	225	21	19	32	26	1.97
44172386--44172757	27	13.7	27	75	3	147	32	7	21	38	1.81
44172639--44172771	55	2.4	54	79	6	142	32	6	22	38	1.80
44172685--44172757	28	2.7	27	91	2	110	31	5	20	42	1.75
44172612--44172843	27	8.5	27	75	4	117	34	7	23	34	1.83
44175056--44175160	31	3.4	31	93	0	174	29	26	14	29	1.95
44175184--44175275	42	2.2	42	90	0	139	34	20	14	30	1.92
44175408--44175517	26	4.4	25	79	8	86	27	21	21	29	1.99
44175421--44175517	26	3.8	26	84	1	135	27	21	23	26	1.99
44175567--44175653	20	4.3	20	88	2	122	28	18	12	40	1.87
44176341--44176404	27	2.4	27	81	5	76	26	25	12	35	1.91
44176437--44176588	81	1.9	81	81	8	184	28	7	23	40	1.82
44176438--44176568	54	2.4	54	84	0	154	29	8	21	40	1.82
44176437--44176588	27	5.7	26	77	9	117	28	7	23	40	1.82
44176466--44176620	81	1.9	80	81	6	188	27	9	21	41	1.84
44176438--44176588	54	2.8	54	81	4	153	27	7	23	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44176625--44176901	27	10.2	27	76	9	100	34	8	23	33	1.85
44176687--44176820	55	2.4	54	81	6	153	31	9	20	38	1.85
44176687--44176820	28	4.9	27	77	9	119	31	9	20	38	1.85
44176788--44176913	54	2.3	54	77	0	144	30	7	25	35	1.85
44176811--44176912	27	3.8	27	82	0	105	33	9	25	31	1.88
44182846--44182906	30	2.0	30	83	0	77	31	22	8	37	1.84
44189931--44189973	18	2.4	18	96	0	77	51	16	13	18	1.77
44197943--44198204	39	6.7	40	89	6	344	25	22	27	24	2.00
44207690--44207839	55	2.8	54	80	4	149	26	15	29	28	1.96
44207662--44207839	27	6.6	27	77	6	146	25	15	28	30	1.96
44207663--44207818	82	1.9	81	81	6	190	25	16	28	30	1.96
44215667--44215843	27	6.5	27	78	5	133	25	15	27	30	1.96
44215721--44215843	55	2.3	54	84	1	147	24	16	30	29	1.96
44217368--44217586	39	5.6	40	85	8	256	26	21	27	24	2.00
44217368--44217586	79	2.8	79	84	8	270	26	21	27	24	2.00
44217371--44217619	79	3.2	79	81	10	219	27	21	26	24	1.99
44219416--44219458	22	2.0	22	100	0	86	18	34	27	18	1.95
44221724--44221755	3	10.7	3	100	0	64	68	0	0	31	0.90
44225669--44225710	12	3.5	12	80	0	57	23	45	26	4	1.73
44225678--44225721	12	3.7	12	78	0	52	27	43	27	2	1.67
44229454--44229587	69	1.9	70	84	4	182	31	11	18	38	1.86
44230646--44230864	45	4.9	45	85	6	288	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44242121--44242167	6	7.8	6	80	7	51	65	27	2	4	1.22
44250761--44250790	14	2.1	14	100	0	60	43	20	0	36	1.52
44279386--44279426	20	2.0	20	85	9	55	39	4	19	36	1.73
44289738--44290024	140	2.0	136	79	8	299	33	9	14	42	1.79
44293687--44293721	18	1.9	18	94	0	61	8	11	8	71	1.31
44301452--44301512	26	2.3	26	83	5	70	32	26	13	27	1.93
44301619--44301733	28	4.2	28	85	7	148	21	20	22	34	1.97
44301686--44301750	27	2.4	26	84	5	76	26	23	15	35	1.94
44311962--44312093	50	2.6	50	84	0	174	30	23	16	29	1.96
44314155--44314189	16	2.2	16	89	0	52	20	11	14	54	1.70
44314552--44314591	18	2.2	18	86	0	53	67	5	2	25	1.23
44317074--44317421	40	8.7	40	95	0	615	22	26	20	31	1.98
44325976--44326324	40	8.7	40	98	0	617	22	28	20	29	1.98
44328710--44328748	19	2.1	19	100	0	78	30	25	10	33	1.89
44345339--44345492	78	2.0	78	94	0	272	18	31	11	38	1.86
44348221--44348528	40	7.7	40	95	0	544	22	26	20	30	1.98
44357097--44357364	40	6.7	40	94	0	464	22	26	20	30	1.98
44365910--44366256	40	8.7	40	94	0	597	22	26	19	31	1.98
44365910--44366257	159	2.2	160	94	1	617	22	26	19	31	1.98
44378002--44378113	43	2.6	42	81	5	145	28	16	24	31	1.96
44378196--44378242	20	2.3	20	85	0	67	34	2	27	36	1.69
44378810--44378843	15	2.3	15	89	0	50	11	2	41	44	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44378841--44379083	121	2.0	121	92	1	407	21	11	31	35	1.90
44379220--44379642	41	10.4	41	87	2	530	34	23	21	20	1.96
44382123--44382372	47	5.3	47	91	1	369	32	9	31	27	1.89
44382223--44382344	22	5.3	22	62	21	61	33	11	29	25	1.91
44384380--44384455	39	2.0	39	87	7	113	31	5	22	40	1.76
44384911--44384961	21	2.4	22	80	3	59	11	0	43	45	1.40
44388248--44388499	133	1.9	133	94	0	450	20	9	18	51	1.73
44396094--44396448	43	8.2	43	83	6	340	26	19	23	30	1.98
44396098--44396468	132	2.8	130	84	4	430	27	19	22	29	1.98
44396116--44396468	87	4.1	85	80	6	287	26	20	22	29	1.99
44399129--44399221	48	1.9	48	89	4	143	51	7	3	37	1.46
44399114--44399221	24	4.5	24	83	5	128	52	7	2	37	1.44
44399423--44399565	49	2.9	49	87	0	205	37	18	13	31	1.89
44399933--44399992	23	2.8	21	77	7	68	66	6	25	1	1.25
44402909--44403165	43	6.0	43	79	5	245	31	18	19	29	1.96
44403099--44403207	42	2.6	42	86	0	137	27	26	20	25	1.99
44408811--44408880	23	3.1	23	87	2	88	15	15	27	41	1.88
44413357--44413492	40	3.4	40	83	5	159	13	14	26	45	1.82
44426489--44426542	26	2.1	26	89	0	81	18	14	12	53	1.72
44429177--44429335	27	5.9	27	79	11	166	35	22	23	19	1.96
44429219--44429335	54	2.2	54	95	0	207	35	24	22	17	1.95
44436387--44436735	48	7.1	48	88	5	484	31	24	6	37	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44436390--44436735	98	3.5	98	87	5	509	31	24	6	37	1.81
44447770--44447821	25	2.0	26	82	10	63	38	0	1	59	1.08
44456187--44456230	13	3.4	13	78	12	54	36	2	22	38	1.67
44458712--44458815	54	1.9	54	82	3	129	25	37	16	21	1.93
44464826--44464866	21	1.9	22	85	5	57	21	4	4	68	1.28
44465616--44465644	15	1.9	15	100	0	58	20	0	24	55	1.44
44466821--44466929	50	2.2	50	96	1	200	32	12	12	42	1.81
44469580--44469687	31	3.5	31	92	1	182	9	30	41	18	1.82
44472946--44473077	43	3.1	41	79	9	149	25	15	28	29	1.96
44487466--44487523	18	3.3	18	66	9	57	43	6	10	39	1.66
44487886--44487930	22	2.0	23	83	12	58	66	0	0	33	0.92
44487935--44488013	13	5.7	13	72	19	54	54	1	0	44	1.08
44488108--44488142	18	2.0	17	88	5	52	54	0	0	45	0.99
44487926--44488353	120	3.7	120	94	4	747	48	5	2	44	1.36
44488681--44488740	18	3.4	18	64	13	52	40	10	6	43	1.64
44490251--44490316	33	2.0	33	100	0	132	42	18	27	12	1.85
44496929--44496969	19	2.1	20	86	13	59	39	0	0	60	0.96
44496906--44496969	20	3.2	19	76	14	58	37	1	0	60	1.06
44502629--44502659	5	6.2	5	100	0	62	0	0	61	38	0.96
44503182--44503214	17	1.9	17	88	11	50	12	30	0	57	1.35
44505351--44505399	23	2.2	23	88	3	73	42	18	4	34	1.69
44505626--44505680	19	3.0	19	77	15	62	63	1	5	29	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44505947--44505983	17	2.2	17	90	9	58	32	5	0	62	1.18
44505981--44506010	13	2.2	14	94	5	53	33	0	0	66	0.92
44505917--44506066	9	17.4	9	67	20	56	32	3	2	62	1.23
44510093--44510126	16	2.1	16	100	0	68	23	17	20	38	1.93
44530050--44530080	5	6.2	5	100	0	62	0	0	61	38	0.96
44530605--44530637	17	1.9	17	88	11	50	12	30	0	57	1.35
44532786--44532837	23	2.3	23	90	3	79	42	19	3	34	1.69
44533067--44533121	19	3.0	19	77	15	62	63	1	5	29	1.27
44533351--44533393	21	2.0	21	86	8	61	27	6	6	58	1.50
44533396--44533436	19	2.1	21	86	13	61	34	4	0	60	1.18

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   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255