genome.fa.s20.2.7.7.80.10.50.1000.39.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  39  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)
11579617--11579875	141	1.8	141	95	0	473	38	14	27	18	1.90
11582389--11582561	46	3.8	46	86	1	231	39	14	24	21	1.91
11582842--11582874	17	2.0	17	94	5	59	48	0	15	36	1.45
11586398--11586425	6	4.7	6	100	0	56	46	0	0	53	1.00
11586750--11586819	34	2.1	34	100	0	140	22	5	35	35	1.78
11591393--11591446	25	2.1	26	86	10	76	61	1	5	31	1.30
11592129--11592162	16	2.2	15	89	5	50	55	2	0	41	1.15
11611366--11611532	83	2.0	83	100	0	334	31	12	25	31	1.93
11615193--11615225	17	1.9	17	100	0	66	36	0	0	63	0.95
11615170--11615300	58	2.3	54	81	11	140	41	2	3	51	1.32
11617578--11617631	21	2.6	21	90	0	90	22	9	38	29	1.85
11621422--11621457	15	2.4	15	90	0	54	8	36	2	52	1.46
11621426--11621460	18	1.9	18	94	0	61	8	37	2	51	1.47
11624823--11624860	21	1.9	21	89	10	62	31	2	2	63	1.22
11631885--11632174	3	96.3	3	74	9	218	27	5	2	64	1.27
11633495--11633536	20	2.0	21	90	4	68	71	0	28	0	0.86
11638747--11638790	20	2.2	20	80	15	56	45	0	0	54	0.99
11639218--11639273	18	3.3	18	66	19	57	35	7	19	37	1.79
11639218--11639281	32	2.0	32	100	0	128	34	6	21	37	1.79
11645767--11645882	31	3.7	31	90	0	187	26	18	28	26	1.98
11645767--11645896	31	4.3	31	82	7	160	28	16	28	26	1.97
11645860--11645955	29	3.3	29	83	0	120	33	10	28	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11645945--11646144	33	6.0	33	83	4	233	34	9	21	35	1.85
11649422--11649456	17	2.1	17	100	0	70	34	40	11	14	1.82
11650338--11650419	26	3.2	26	91	0	137	32	6	24	36	1.80
11656544--11656581	5	7.4	5	83	16	51	81	0	0	18	0.69
11656532--11656573	6	7.0	6	86	13	52	78	2	0	19	0.86
11656535--11656578	16	2.6	17	89	10	65	79	2	0	18	0.83
11657229--11657346	48	2.5	48	95	0	209	37	12	3	46	1.59
11657231--11657364	48	2.8	48	89	2	162	38	13	2	44	1.59
11658526--11658617	31	3.0	31	84	7	91	48	14	15	21	1.80
11658547--11658626	31	2.5	31	88	6	108	47	16	12	23	1.80
11665842--11665888	23	2.0	23	88	8	69	38	6	0	55	1.26
11666410--11666464	22	2.6	21	77	5	65	27	5	0	67	1.12
11666519--11666617	10	9.5	11	72	10	50	40	7	1	51	1.36
11666527--11666620	21	4.7	19	76	16	66	42	7	1	48	1.38
11668769--11668796	11	2.5	11	100	0	56	35	7	17	39	1.78
11669733--11669757	3	8.3	3	100	0	50	0	32	0	68	0.90
11673395--11673442	19	2.6	19	86	3	71	35	2	14	47	1.56
11677205--11677254	19	2.7	18	84	9	64	34	2	16	48	1.57
11682163--11682205	23	1.9	22	85	4	59	62	2	2	32	1.20
11689398--11689439	20	2.0	20	82	13	50	54	2	16	26	1.54
11690045--11690085	20	2.0	20	95	0	73	21	41	26	9	1.84
11694555--11694607	22	2.4	22	93	0	88	30	52	3	13	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11694882--11694936	19	2.9	19	81	7	58	10	3	3	81	0.93
11694883--11694932	26	2.0	25	84	11	66	10	4	4	82	0.94
11695847--11695997	3	49.3	3	90	3	239	31	3	1	63	1.19
11708216--11708307	24	3.8	24	94	0	148	36	31	11	19	1.88
11708171--11708304	48	2.8	48	83	0	151	35	29	11	23	1.91
11708171--11708307	72	1.9	72	87	0	202	35	30	11	22	1.90
11709481--11709514	17	2.0	17	94	0	59	38	5	0	55	1.24
11710630--11710671	18	2.3	19	84	12	52	38	0	0	61	0.96
11710864--11710925	25	2.4	25	82	15	74	35	0	3	61	1.12
11710932--11711069	21	6.4	21	69	16	88	36	0	5	57	1.26
11710974--11711006	17	1.9	17	93	0	57	42	0	3	54	1.15
11710961--11711008	25	1.9	25	87	8	71	37	0	2	60	1.09
11710867--11711168	88	3.4	88	90	2	457	36	1	4	57	1.31
11714451--11714555	6	17.3	6	87	4	122	0	35	0	63	1.01
11714476--11714556	9	8.1	10	81	10	55	1	30	0	67	0.98
11715016--11715048	7	4.7	7	85	14	50	42	0	0	57	0.98
11715374--11715427	16	3.4	16	77	10	56	33	20	1	44	1.62
11724555--11724593	19	2.2	18	86	9	53	53	5	0	41	1.23
11724727--11724751	11	2.3	11	100	0	50	20	16	12	52	1.75
11728809--11728860	22	2.2	24	78	21	58	34	0	5	59	1.21
11729013--11729079	34	1.9	35	87	3	100	44	11	8	34	1.73
11729416--11729478	30	2.1	30	100	0	126	58	9	12	19	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11729421--11729491	30	2.4	30	88	4	90	61	9	12	15	1.55
11733065--11733145	40	2.0	40	95	0	144	51	11	16	20	1.74
11739115--11739172	30	1.9	31	89	3	91	50	1	0	48	1.11
11742186--11742235	17	2.8	18	84	6	75	38	0	0	62	0.96
11745297--11745348	27	1.9	28	92	7	90	61	3	0	34	1.14
11745291--11745356	27	2.5	25	81	15	80	65	4	1	28	1.21
11745857--11745890	14	2.3	15	85	10	52	35	5	11	47	1.65
11761383--11761490	55	2.0	55	98	0	207	40	19	12	27	1.87
11764869--11764931	26	2.3	26	76	15	74	15	23	6	53	1.65
11765106--11765154	25	2.0	25	95	0	89	12	30	12	44	1.78
11765367--11765403	16	2.3	16	90	0	56	8	10	18	62	1.52
11768069--11768199	35	3.6	35	75	16	106	36	21	10	31	1.88
11768067--11768176	35	2.9	38	76	16	115	35	21	10	32	1.87
11770577--11770632	3	18.7	3	78	7	60	58	0	3	37	1.15
11770583--11770640	18	3.2	18	80	11	73	58	0	3	37	1.15
11770577--11770654	27	3.1	24	74	16	61	61	1	3	33	1.22
11771356--11771383	13	2.2	13	100	0	56	14	0	32	53	1.41
11771572--11771606	13	2.7	13	100	0	70	14	17	54	14	1.72
11772423--11772634	77	2.7	76	84	3	255	36	19	13	29	1.91
11772502--11772749	132	1.9	131	88	0	370	33	20	14	31	1.93
11772634--11773077	77	5.8	77	86	3	599	36	20	15	28	1.93
11780609--11780801	53	3.6	53	94	1	307	28	27	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11788166--11788316	53	2.8	53	89	4	214	29	27	16	25	1.97
11795223--11795280	24	2.5	22	78	13	64	65	5	3	25	1.29
11795439--11795571	3	43.0	3	69	23	57	60	3	2	33	1.27
11795472--11795535	19	3.4	19	81	16	71	57	6	0	35	1.24
11795439--11795547	8	13.1	8	70	25	68	60	4	0	33	1.23
11799342--11799427	45	1.9	45	100	0	172	22	9	16	52	1.72
11799342--11799411	22	3.1	22	66	18	63	22	10	18	48	1.78
11799358--11799428	22	3.2	21	67	18	63	22	9	14	53	1.69
11800352--11800414	21	3.0	21	83	4	65	60	3	1	34	1.22
11802421--11802448	6	4.7	6	100	0	56	35	0	14	50	1.43
11810352--11810400	26	2.0	24	84	8	62	63	8	0	28	1.23
11813213--11813307	27	3.4	27	76	13	88	38	35	6	18	1.77
11814245--11814283	3	12.7	3	83	5	51	64	2	0	33	1.08
11819605--11819655	18	2.8	18	87	0	75	50	1	0	47	1.12
11824460--11824502	13	3.0	13	83	16	50	39	0	0	60	0.97
11827750--11827801	25	2.1	25	100	0	104	25	15	32	26	1.95
11831777--11831827	22	2.4	21	77	6	57	9	3	9	76	1.14
11831809--11831837	11	2.5	12	94	5	51	20	6	0	72	1.07
11832010--11832047	18	2.1	18	90	0	58	55	0	0	44	0.99
11836729--11836805	38	2.0	38	100	0	154	24	15	18	41	1.89
11836905--11836966	30	2.1	30	87	6	90	41	9	1	46	1.46
11841861--11842811	120	7.9	120	83	1	1008	28	28	14	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11843853--11843891	7	5.6	7	100	0	78	0	28	0	71	0.86
11845893--11845943	23	2.4	21	83	9	59	29	3	0	66	1.09
11847507--11847549	18	2.4	18	88	7	61	53	0	0	46	1.00
11848623--11850367	872	2.0	872	100	0	3490	35	18	11	35	1.86
11854777--11854831	24	2.4	23	81	6	58	21	5	1	70	1.16
11856633--11856673	8	5.1	8	83	16	50	63	0	2	34	1.08
11859007--11859035	9	3.3	9	95	4	51	93	0	6	0	0.36
11859007--11859036	15	2.0	15	93	0	51	90	0	10	0	0.47
11863228--11863269	22	2.0	21	86	9	59	54	0	16	28	1.42
11865943--11865969	13	2.1	13	100	0	54	51	0	7	40	1.30

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