genome.fa.s20.2.7.7.80.10.50.1000.105.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  105  of  186  ( 22216 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)
34510393--34510448	9	6.2	9	74	13	53	67	0	1	30	1.01
34510377--34510436	27	2.2	26	77	13	68	70	0	3	26	1.03
34510383--34510446	29	2.2	28	84	13	78	67	0	1	31	1.00
34510392--34510443	17	2.8	18	77	13	61	71	0	1	26	0.97
34510383--34510448	28	2.3	28	82	7	80	68	0	1	30	0.99
34514284--34514316	17	2.0	17	94	5	59	36	15	0	48	1.45
34514602--34514738	46	3.0	46	87	6	181	24	21	13	39	1.90
34516869--34516936	30	2.3	30	84	5	84	27	19	5	47	1.72
34519375--34519407	17	2.0	17	94	5	59	36	15	0	48	1.45
34519693--34519961	46	5.8	46	95	0	414	20	23	14	40	1.90
34526580--34526610	12	2.6	12	100	0	62	25	41	25	6	1.79
34533707--34533733	7	3.9	7	100	0	54	29	14	25	29	1.95
34533738--34533776	7	5.6	7	85	11	53	17	0	41	41	1.50
34535141--34535167	7	3.9	7	100	0	54	29	14	25	29	1.95
34535172--34535210	7	5.6	7	85	11	53	17	0	41	41	1.50
34537494--34537667	27	6.4	27	87	6	160	26	25	14	33	1.94
34539637--34539691	25	2.2	26	90	3	85	34	7	21	36	1.81
34548496--34548545	21	2.3	21	86	10	66	62	2	0	36	1.07
34553730--34553773	22	1.9	24	90	9	74	0	13	15	70	1.17
34573534--34573561	14	2.0	14	100	0	56	28	7	7	57	1.52
34578473--34578528	25	2.2	25	90	0	85	41	17	7	33	1.77
34579794--34579842	16	3.1	16	90	0	80	16	22	16	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34581934--34582087	43	3.6	42	76	10	116	22	17	25	33	1.96
34581961--34582061	42	2.3	42	80	12	107	22	16	25	34	1.95
34581939--34582045	44	2.5	43	81	6	110	23	18	26	31	1.97
34593359--34593409	21	2.3	22	93	6	86	43	0	23	33	1.54
34601214--34601486	46	5.8	48	75	12	226	21	31	20	25	1.98
34601211--34601486	94	2.9	95	79	8	319	22	31	20	25	1.98
34602799--34603004	27	7.6	27	84	3	254	39	19	8	32	1.82
34602799--34603005	54	3.8	54	87	1	290	39	19	8	32	1.81
34602799--34603074	81	3.4	81	81	3	288	39	19	9	31	1.83
34602799--34603074	27	10.2	26	80	4	228	39	19	9	31	1.83
34602933--34603113	81	2.2	81	78	5	188	37	22	9	30	1.86
34603097--34603273	27	6.6	27	82	1	203	37	19	18	23	1.94
34603097--34603275	54	3.3	54	80	1	225	37	19	18	24	1.94
34603736--34603833	6	15.8	6	74	17	85	19	19	13	47	1.81
34603736--34603828	25	3.7	25	88	0	141	19	19	13	47	1.82
34632539--34632641	41	2.6	40	86	7	138	22	27	23	27	1.99
34641976--34642237	40	6.6	40	96	1	456	24	27	22	24	2.00
34659358--34659719	184	2.0	184	92	0	607	31	27	15	25	1.96
34684745--34684877	66	2.0	66	89	0	203	39	14	17	29	1.89
34688305--34688351	23	2.0	24	84	12	62	31	6	4	57	1.43
34698600--34698632	6	5.5	6	100	0	66	30	54	0	15	1.41
34698962--34699075	3	38.0	3	70	19	60	23	4	2	69	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34698961--34699071	16	7.6	14	68	22	52	22	4	2	70	1.18
34698961--34699075	29	4.0	29	77	16	105	23	4	2	69	1.19
34700090--34700122	13	2.6	13	95	4	59	54	15	0	30	1.41
34709141--34709179	6	6.5	6	93	0	60	15	0	5	79	0.90
34710983--34711026	19	2.3	19	84	0	61	18	20	34	27	1.96
34727721--34727769	22	2.1	24	85	7	66	38	0	4	57	1.18
34727910--34727939	13	2.4	13	94	5	53	56	0	0	43	0.99
34727954--34727983	11	2.6	11	94	5	51	63	0	0	36	0.95
34727963--34727995	14	2.3	15	85	15	52	63	0	0	36	0.95
34728038--34728070	13	2.4	14	90	5	50	45	0	0	54	0.99
34728076--34728244	22	8.3	21	66	23	87	57	1	0	40	1.14
34728076--34728140	22	3.0	22	84	11	89	56	0	0	43	0.99
34728125--34728198	14	5.7	14	71	24	56	60	4	0	35	1.15
34728105--34728212	36	3.1	36	86	6	159	59	2	0	37	1.18
34728125--34728198	13	5.8	13	70	22	50	60	4	0	35	1.15
34728138--34728184	23	2.1	23	88	4	69	61	6	0	31	1.21
34728175--34728270	22	4.3	22	78	13	97	51	4	1	43	1.28
34728321--34728372	18	2.9	17	80	11	61	80	1	9	7	0.97
34728325--34728396	17	3.9	18	79	15	69	76	1	9	12	1.08
34728321--34728392	36	1.9	38	91	5	121	77	1	11	9	1.05
34731667--34731713	14	3.1	15	85	11	60	36	0	0	63	0.94
34731680--34731713	9	3.4	10	88	12	52	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34731680--34731713	5	6.8	5	87	12	52	38	0	0	61	0.96
34740799--34740840	15	2.5	17	85	14	61	28	0	0	71	0.86
34743476--34743518	20	2.0	22	82	8	54	46	16	11	25	1.80
34747707--34747782	40	1.9	40	91	0	125	35	35	13	15	1.87
34748136--34748170	18	1.9	18	94	0	61	14	34	25	25	1.94
34754663--34754715	26	2.0	26	96	0	97	39	15	9	35	1.79
34756038--34756096	28	2.2	27	84	6	75	57	0	1	40	1.09
34759245--34759297	13	4.1	13	80	0	70	28	7	28	35	1.84
34760282--34760324	20	2.2	20	100	0	86	44	18	4	32	1.71
34761809--34761908	46	2.2	46	85	3	130	39	29	12	20	1.88
34761809--34761908	23	4.3	23	80	7	105	39	29	12	20	1.88
34763899--34763948	21	2.4	21	93	0	82	30	28	22	20	1.98
34771409--34771489	41	2.0	41	87	4	119	33	17	12	37	1.87
34773108--34773187	40	2.0	40	92	0	133	35	13	32	18	1.90
34776085--34776174	35	2.6	35	87	3	119	26	14	16	42	1.87
34776350--34776414	28	2.2	30	76	15	73	29	20	13	36	1.91
34777441--34777530	35	2.6	35	87	3	119	26	14	16	42	1.87
34777706--34777770	28	2.2	30	76	15	73	29	20	13	36	1.91
34778869--34778920	16	3.4	16	84	7	65	40	13	13	32	1.83
34784976--34785075	35	2.9	35	95	0	182	23	18	20	39	1.93
34788455--34788584	48	2.7	49	78	7	147	22	27	20	30	1.98
34788402--34788719	141	2.2	142	80	9	348	25	28	19	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34788602--34788814	46	4.6	46	89	1	291	22	29	16	31	1.96
34794744--34794795	23	2.3	23	83	9	63	61	5	11	21	1.50
34808072--34808198	42	3.0	42	86	6	170	29	26	14	29	1.95
34808157--34808280	47	2.7	46	84	2	158	29	26	16	28	1.97
34808305--34808453	31	4.8	31	90	0	217	25	26	20	27	1.99
34808435--34808605	50	3.4	50	93	0	288	26	22	15	35	1.94
34811842--34811901	25	2.4	25	88	0	84	30	18	25	26	1.98
34811842--34811922	25	3.2	25	81	10	78	29	17	25	27	1.97
34814092--34814204	38	3.0	38	84	2	138	26	37	13	23	1.91
34817565--34817604	21	1.9	21	85	10	55	37	5	7	50	1.53
34818935--34819000	26	2.6	26	72	15	66	33	0	1	65	1.02
34818976--34819011	17	2.1	17	89	5	54	33	0	2	63	1.08
34820215--34820280	34	2.1	32	86	11	91	34	3	13	48	1.58
34823167--34823215	20	2.5	20	86	6	64	67	2	30	0	1.02
34824381--34824492	18	6.2	17	77	6	80	34	13	16	35	1.87
34824381--34824492	36	3.1	35	79	5	125	34	13	16	35	1.87
34830322--34830364	17	2.5	17	100	0	86	16	23	41	18	1.89
34831302--34831327	13	2.0	13	100	0	52	30	15	23	30	1.95
34831576--34831967	188	2.1	188	100	0	784	38	3	8	49	1.51
34831764--34832280	267	1.9	267	100	0	1034	40	2	7	49	1.46
34833706--34833817	18	6.2	17	77	6	89	33	13	16	35	1.88
34833706--34833817	36	3.1	35	82	5	134	33	13	16	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34834623--34835299	339	2.0	339	94	1	1196	31	13	23	32	1.93
34848077--34848211	40	3.4	40	95	2	245	21	20	27	30	1.98
34848401--34848445	20	2.2	21	96	4	83	31	8	20	40	1.83
34854509--34854641	40	3.3	40	95	2	241	21	20	28	30	1.98
34856353--34856473	42	2.9	41	72	15	111	23	38	17	21	1.93
34859844--34859882	19	2.1	19	85	0	51	33	35	2	28	1.71
34861333--34861487	79	2.0	79	84	1	204	44	10	12	32	1.76
34861679--34862080	203	2.0	203	87	0	579	30	18	22	28	1.98
34873568--34873600	11	2.9	12	86	13	52	33	0	0	66	0.92
34873722--34873781	29	2.0	30	90	9	97	56	11	3	28	1.51

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