genome.fa.s25.2.7.7.80.10.50.1000.208.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  208  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)
61133407--61133455	16	3.1	17	88	8	68	51	0	0	48	1.00
61135090--61135133	18	2.7	15	80	16	52	47	0	13	38	1.43
61135403--61135435	14	2.3	15	89	5	50	51	9	0	39	1.34
61140404--61140479	31	2.5	31	80	0	98	48	18	2	30	1.62
61144099--61144234	46	3.0	46	91	0	218	30	27	8	33	1.86
61144158--61144232	23	3.2	24	63	21	59	29	30	6	33	1.83
61145446--61145493	17	2.9	17	87	3	71	50	20	2	27	1.60
61167881--61167912	7	4.6	7	100	0	64	28	12	0	59	1.34
61168236--61168263	5	5.6	5	100	0	56	0	64	35	0	0.94
61170266--61170486	114	1.9	113	81	6	259	42	18	6	33	1.75
61176507--61176569	30	2.1	30	96	0	117	50	20	4	23	1.67
61180775--61180834	31	1.9	31	89	0	93	31	8	10	50	1.66
61183732--61183760	15	1.9	15	100	0	58	72	6	0	20	1.07
61190054--61190085	12	2.7	12	95	0	55	50	15	3	31	1.60
61193058--61193117	31	1.9	31	83	6	77	31	15	11	41	1.82
61198020--61198181	60	2.7	61	79	4	168	42	17	15	24	1.88
61201987--61202012	5	5.2	5	100	0	52	19	0	0	80	0.71
61205885--61205953	13	4.8	14	71	16	52	62	1	4	31	1.24
61208528--61208557	15	1.9	16	93	6	53	36	10	6	46	1.64
61221438--61221489	21	2.5	21	90	6	79	46	1	0	51	1.12
61221438--61221489	10	4.9	11	84	15	74	46	1	0	51	1.12
61221438--61221495	21	2.7	22	84	7	75	44	1	0	53	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61221438--61221514	21	3.6	22	79	8	63	45	1	2	50	1.23
61223306--61223346	16	2.6	16	88	0	64	43	4	4	46	1.46
61223320--61223381	22	2.7	23	87	5	81	46	1	3	48	1.28
61236071--61236128	28	2.1	27	87	9	82	62	6	0	31	1.22
61240178--61240243	27	2.4	27	82	9	89	51	12	10	25	1.71
61240192--61240249	27	2.1	27	84	6	73	55	10	8	25	1.62
61240115--61240280	85	2.0	84	97	1	314	48	13	10	27	1.74
61240332--61240392	31	1.9	32	86	3	88	42	14	13	29	1.84
61248281--61248307	12	2.2	12	100	0	54	29	0	11	59	1.32
61251817--61252063	114	2.2	114	91	0	424	39	13	27	19	1.89
61252049--61252078	3	10.0	3	100	0	60	66	0	33	0	0.92
61251939--61252195	129	2.0	129	92	1	426	40	11	29	18	1.86
61252061--61252416	117	3.0	117	91	2	541	38	12	28	20	1.90
61279011--61279047	18	2.1	18	94	0	65	37	29	5	27	1.79
61279059--61279109	21	2.4	21	80	0	57	35	29	3	31	1.76
61279261--61279304	22	2.0	22	100	0	88	36	31	9	22	1.86
61281712--61281808	51	1.9	51	83	8	126	36	9	18	36	1.83
61283163--61283234	30	2.5	30	79	4	85	36	4	4	55	1.38
61293563--61293634	25	2.7	27	80	20	82	61	0	2	36	1.11
61294039--61294079	19	2.1	19	86	4	55	41	2	0	56	1.13
61294086--61294119	16	2.2	15	89	5	50	55	0	0	44	0.99
61297706--61297866	83	1.9	83	94	0	286	38	14	18	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61302736--61302898	23	7.1	23	80	2	184	31	26	20	21	1.98
61302736--61302898	46	3.5	46	87	0	236	31	26	20	21	1.98
61303126--61303164	18	2.2	17	86	13	53	46	20	0	33	1.51
61307233--61307291	30	1.9	31	82	3	75	47	5	20	27	1.71
61310407--61310454	24	2.0	24	84	12	62	52	0	0	47	1.00
61310543--61310573	14	2.2	14	100	0	62	45	6	29	19	1.75
61314420--61314468	25	2.0	25	83	0	62	71	6	2	20	1.18
61316872--61316924	25	2.1	25	86	6	72	60	3	0	35	1.15
61317835--61317882	21	2.2	22	82	10	55	29	6	4	60	1.40
61318463--61318488	10	2.6	10	100	0	52	73	0	0	26	0.84
61319621--61319661	20	2.0	20	86	9	57	39	17	7	36	1.77
61320499--61320575	32	2.4	32	85	6	95	35	11	15	37	1.84
61328903--61328936	17	2.0	17	88	0	50	47	0	5	47	1.26
61331233--61331277	21	2.3	19	84	7	54	40	15	2	42	1.59
61331258--61331297	14	2.9	14	84	0	53	40	20	7	32	1.80
61347783--61347815	15	2.1	16	88	5	50	36	0	3	60	1.12
61353039--61353107	33	2.1	33	89	5	104	43	36	5	14	1.70
61362200--61362256	20	3.1	19	79	16	59	70	0	1	28	0.98
61363887--61363924	17	2.1	18	85	9	51	15	5	10	68	1.36
61373215--61373363	76	2.0	76	100	0	298	21	15	20	42	1.89
61385503--61385540	20	1.9	20	89	10	60	55	0	0	44	0.99
61397615--61397657	20	2.2	20	87	8	61	53	0	2	44	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61397753--61397841	39	2.2	41	86	4	119	34	2	7	55	1.42
61398930--61398972	15	2.8	16	79	13	54	11	0	39	48	1.40
61399089--61399531	125	3.5	125	90	0	688	32	18	20	28	1.96
61402215--61402248	16	2.1	16	94	0	59	41	2	5	50	1.42
61403712--61403807	27	3.6	26	81	6	95	55	4	3	37	1.35
61403712--61403807	40	2.4	40	92	3	158	55	4	3	37	1.35
61403712--61403845	13	10.2	13	73	13	96	52	4	3	38	1.39
61403959--61403992	15	2.3	15	94	0	59	41	2	14	41	1.61
61404028--61404123	27	3.6	26	78	4	93	57	3	3	36	1.30
61404028--61404123	40	2.4	39	91	3	138	57	3	3	36	1.30
61404028--61404123	13	7.2	13	80	6	86	57	3	3	36	1.30
61404273--61404306	15	2.3	15	94	0	59	41	2	14	41	1.61
61404342--61404433	13	7.0	13	89	7	132	58	6	1	33	1.31
61403658--61404433	316	2.5	315	95	1	1396	51	5	5	37	1.48
61404635--61404660	5	5.2	5	100	0	52	38	19	19	23	1.93
61404609--61404660	26	2.0	26	81	7	61	34	15	26	23	1.94
61405571--61405607	9	4.1	9	85	0	56	27	10	16	45	1.80
61407906--61408003	51	1.9	51	87	4	144	47	2	24	25	1.62
61407967--61408031	11	6.1	10	83	16	62	46	4	27	21	1.71
61407967--61408027	22	2.8	23	87	9	76	44	4	29	21	1.73
61414593--61414733	72	2.0	72	92	0	237	32	19	11	36	1.88
61426030--61426067	19	2.0	19	85	10	51	39	2	7	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61426992--61427043	24	2.2	24	89	0	77	55	9	1	32	1.43
61428963--61429014	24	2.2	24	89	0	77	55	9	1	32	1.43
61439453--61439491	16	2.4	16	86	0	51	17	5	7	69	1.32
61440996--61441035	4	10.0	4	100	0	80	50	25	0	25	1.50
61441308--61441337	4	7.5	4	100	0	60	23	0	26	50	1.50
61444579--61444608	15	1.9	16	93	6	53	20	10	0	70	1.16
61448883--61448907	13	1.9	13	100	0	50	24	0	0	76	0.80
61449338--61449520	96	1.9	92	82	14	228	28	12	15	43	1.83
61459381--61459419	19	2.0	21	85	10	55	69	5	10	15	1.34
61459577--61459634	22	2.6	22	84	7	73	43	17	3	36	1.66
61459613--61459668	21	2.8	19	82	10	76	39	16	7	37	1.76
61459624--61459667	21	2.1	21	95	0	79	40	13	6	38	1.71
61468230--61468260	4	7.8	4	100	0	62	48	0	25	25	1.52
61470151--61470179	11	2.6	11	100	0	58	62	17	10	10	1.54
61473157--61473219	24	2.9	21	73	21	58	30	3	0	66	1.07
61475026--61475164	46	3.0	45	89	2	206	29	27	10	33	1.89
61478555--61478608	4	13.5	4	84	0	63	27	1	24	46	1.63
61478560--61478618	28	2.1	28	83	0	73	28	3	25	42	1.71
61488754--61488814	31	1.9	32	90	3	97	36	6	11	45	1.66
61491961--61492005	23	2.0	23	82	8	56	44	6	2	46	1.42
61495739--61495947	92	2.3	91	86	5	278	45	3	3	46	1.39
61495875--61495922	26	1.9	25	84	16	64	45	0	2	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61495963--61496255	120	2.4	120	91	4	441	43	3	5	48	1.40
61496088--61496139	15	3.6	15	80	12	56	44	0	1	53	1.11
61496208--61496249	15	2.9	15	82	10	52	50	0	0	50	1.00
61496192--61496508	157	2.0	157	96	0	580	47	5	3	43	1.40
61496361--61496395	18	2.0	17	88	5	52	45	0	0	54	0.99
61496631--61496666	16	2.2	16	95	0	63	36	36	0	27	1.57
61499124--61499200	25	3.2	25	76	5	79	19	23	18	38	1.93
61499124--61499233	47	2.3	49	72	21	108	19	21	18	40	1.91
61506385--61506432	6	8.0	6	100	0	96	33	50	0	16	1.46
61510383--61510456	21	3.5	22	85	10	100	35	27	22	14	1.94

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