genome.fa.s4.2.7.7.80.10.50.1000.133.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: At_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  133  of  235  ( 28198 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)
45116141--45116260	56	2.1	56	96	0	222	22	22	9	45	1.80
45120605--45120670	28	2.4	28	84	0	96	19	24	13	42	1.87
45120703--45120775	28	2.6	28	88	0	101	17	31	17	32	1.94
45122738--45122784	22	2.3	20	82	13	60	70	8	4	17	1.29
45123353--45123399	22	2.2	21	84	3	58	36	21	8	34	1.84
45123372--45123422	19	2.9	16	78	18	57	35	17	9	37	1.83
45123370--45123412	19	2.1	21	91	8	72	34	18	9	37	1.83
45123771--45124590	220	3.7	220	92	0	1300	27	22	17	32	1.96
45124258--45124418	89	1.8	89	89	5	256	27	22	17	31	1.97
45124679--45124780	44	2.3	44	88	1	152	28	20	20	30	1.98
45125739--45125792	9	5.6	9	77	16	54	3	12	0	83	0.78
45128318--45128350	12	2.7	12	95	4	57	0	27	0	72	0.85
45128364--45128463	50	2.0	50	100	0	200	38	8	18	36	1.80
45132337--45132460	9	13.7	9	66	23	64	60	2	4	33	1.28
45134011--45134039	4	7.2	4	100	0	58	24	0	0	75	0.80
45134430--45134498	19	3.6	19	100	0	138	36	15	11	36	1.84
45134881--45134975	26	3.4	25	66	27	64	40	0	2	57	1.10
45140323--45140363	18	2.1	20	86	13	59	41	0	0	58	0.98
45140677--45140841	84	2.0	85	85	3	226	37	11	7	43	1.70
45140677--45140880	84	2.4	84	82	6	209	37	12	8	42	1.73
45151405--45151452	23	2.1	23	92	0	78	20	33	8	37	1.83
45159176--45159233	28	2.1	28	83	6	73	60	1	18	18	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45161835--45161869	18	2.0	18	88	5	54	68	0	0	31	0.90
45162152--45162230	35	2.2	37	86	13	121	36	15	10	37	1.81
45162173--45162228	17	3.5	15	88	9	60	35	16	10	37	1.83
45162159--45162230	19	3.9	19	89	10	123	36	15	11	37	1.83
45162583--45162737	45	3.5	44	83	7	197	23	27	15	34	1.95
45162597--45162827	89	2.6	92	80	7	228	24	26	18	30	1.98
45162916--45163399	78	6.2	78	88	2	731	23	24	19	32	1.98
45162916--45163400	156	3.1	155	94	0	844	23	24	19	32	1.98
45163271--45163398	37	3.4	37	64	16	98	21	22	21	34	1.97
45165088--45165151	3	20.3	3	73	20	51	35	1	1	60	1.15
45165088--45165265	21	8.9	20	68	20	88	36	3	1	57	1.27
45165074--45165150	36	2.1	35	84	13	95	35	2	2	59	1.25
45165165--45165223	27	2.2	26	85	8	75	35	1	1	61	1.16
45165574--45165626	19	2.9	19	77	8	56	30	1	1	66	1.13
45169346--45169375	14	2.1	14	93	0	51	36	6	10	46	1.64
45169395--45169431	15	2.5	16	87	12	53	21	24	10	43	1.84
45169395--45169444	15	3.5	15	79	15	52	20	24	14	42	1.88
45175390--45175478	45	2.0	45	93	0	151	29	17	21	31	1.96
45177554--45178104	206	2.7	207	88	2	813	31	17	21	29	1.97
45179930--45180118	20	9.9	20	71	17	75	37	3	1	57	1.23
45179928--45180118	47	3.9	48	71	21	146	37	3	1	57	1.23
45180002--45180079	27	3.1	26	80	12	76	35	2	1	60	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45180015--45180068	13	4.3	13	75	15	51	37	0	1	61	1.07
45179925--45180060	40	3.1	43	72	20	113	37	2	1	58	1.23
45180002--45180118	50	2.4	49	76	13	116	36	3	0	58	1.21
45182368--45182659	119	2.5	119	95	3	518	32	17	20	29	1.95
45182489--45182950	207	2.2	206	88	2	660	31	18	21	29	1.97
45184776--45184964	20	9.9	20	71	17	75	37	3	1	57	1.23
45184774--45184964	47	3.9	48	71	21	146	37	3	1	57	1.23
45184848--45184925	27	3.1	26	80	12	76	35	2	1	60	1.19
45184861--45184914	13	4.3	13	75	15	51	37	0	1	61	1.07
45184771--45184906	40	3.1	43	72	20	113	37	2	1	58	1.23
45184848--45184964	50	2.4	49	76	13	116	36	3	0	58	1.21
45194802--45194834	17	1.9	17	88	11	50	69	0	0	30	0.88
45194802--45194835	18	1.9	17	88	5	50	70	0	0	29	0.87
45195092--45195167	22	3.7	21	76	15	68	40	17	6	35	1.75
45195121--45195218	35	2.7	37	87	12	150	35	16	10	37	1.82
45195128--45195218	19	4.9	19	92	8	161	36	15	10	37	1.83
45207089--45207136	25	1.9	25	86	0	69	33	20	16	29	1.95
45207271--45207374	25	4.2	25	83	9	115	30	21	19	28	1.97
45207297--45207380	25	3.4	25	85	8	118	29	20	20	29	1.97
45207272--45207392	49	2.4	52	79	15	148	28	22	21	28	1.99
45207585--45207666	31	2.6	31	90	0	128	39	12	21	26	1.89
45207589--45207689	31	2.8	37	72	20	106	38	13	21	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45208812--45208849	18	2.1	18	100	0	76	34	15	26	23	1.95
45212643--45212827	92	2.0	92	94	0	325	26	14	37	22	1.92
45215169--45215215	20	2.3	20	85	7	60	34	8	23	34	1.85
45215273--45215370	25	3.9	25	81	5	110	26	21	19	32	1.97
45215575--45215641	31	2.2	31	97	0	125	37	16	22	23	1.94
45218777--45218810	17	2.0	17	100	0	68	29	41	11	17	1.85
45221721--45221759	18	2.2	18	90	0	60	7	7	2	82	0.94
45237347--45237381	5	6.8	5	90	6	52	85	0	0	14	0.59
45237423--45237626	50	4.1	50	99	0	390	46	9	11	32	1.72
45239997--45240199	38	4.8	40	74	14	162	32	24	14	29	1.95
45240042--45240168	46	2.7	47	84	3	168	33	22	14	29	1.93
45244261--45244586	39	8.3	39	89	1	438	31	15	20	32	1.94
45252047--45252112	19	3.2	21	87	6	64	36	19	9	34	1.84
45252064--45252161	19	5.2	19	92	7	164	35	16	10	37	1.82
45252064--45252161	36	2.6	37	90	9	153	35	16	10	37	1.82
45252734--45252971	44	5.6	44	76	11	226	27	22	17	33	1.96
45252748--45252818	37	1.9	37	97	0	133	26	21	16	35	1.95
45252739--45253004	132	2.1	125	89	4	397	27	21	17	33	1.96
45253109--45253148	21	1.9	21	89	0	62	57	0	12	30	1.36
45253156--45253196	21	2.0	21	85	0	55	41	9	12	36	1.76
45253246--45253304	19	3.1	19	90	4	91	50	8	1	38	1.43
45253292--45253320	14	2.1	14	100	0	58	51	13	0	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45253976--45254403	88	4.9	86	74	11	325	28	25	15	31	1.96
45253872--45254412	132	4.1	132	93	0	895	27	25	16	30	1.97
45255303--45255354	1	52.0	1	76	0	50	1	7	1	88	0.66
45255303--45255352	9	5.6	9	83	6	66	2	8	2	88	0.68
45256428--45256459	7	4.7	7	96	3	57	0	9	0	90	0.45
45260603--45260668	19	3.2	21	87	6	64	36	19	9	34	1.84
45260620--45260717	19	5.2	19	92	7	164	35	16	10	37	1.82
45260620--45260717	36	2.6	37	90	9	153	35	16	10	37	1.82
45263446--45263933	44	11.1	44	90	0	627	30	15	26	26	1.96
45263446--45263933	263	1.9	263	87	0	717	30	15	26	26	1.96
45265532--45265556	12	2.1	12	100	0	50	44	0	0	56	0.99
45265502--45265573	29	2.5	28	84	6	99	36	6	0	56	1.26
45265577--45265627	26	2.0	26	84	7	68	31	3	3	60	1.33
45268350--45268400	13	4.0	13	75	12	52	3	23	0	72	1.01
45268954--45269055	50	2.0	50	90	0	159	21	20	26	31	1.98
45275121--45275218	49	2.0	50	94	4	173	56	11	7	25	1.60
45275507--45275563	13	3.9	15	70	22	50	61	0	1	36	1.07
45275870--45276123	7	35.6	7	64	24	63	59	0	5	33	1.27
45275898--45275955	22	2.6	21	73	10	53	60	0	8	31	1.27
45275974--45276110	3	46.0	3	67	23	51	59	0	5	35	1.19
45275970--45276112	20	6.9	20	68	23	59	60	0	4	34	1.18
45275974--45276054	30	2.6	30	78	3	90	62	0	3	33	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45275915--45276056	50	2.8	51	80	11	125	61	1	5	30	1.27
45276023--45276093	20	3.5	20	83	7	81	61	0	5	32	1.19
45276023--45276110	10	8.4	10	71	14	70	60	0	4	35	1.17
45276021--45276172	51	3.0	51	78	14	131	58	0	5	34	1.27
45277836--45278418	205	2.8	205	91	0	916	29	21	18	30	1.97
45299440--45299497	26	2.2	26	87	0	80	37	3	12	46	1.58
45303731--45303769	20	1.9	20	89	5	60	41	2	5	51	1.38
45304909--45304946	14	2.8	14	88	4	51	55	0	2	42	1.14
45305118--45305148	14	2.2	14	94	0	53	83	0	16	0	0.64
45305744--45305768	11	2.3	11	100	0	50	56	0	0	44	0.99

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