genome.fa.s23.2.7.7.80.10.50.1000.89.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  89  of  167  ( 19959 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)
29314262--29314397	65	2.1	65	100	0	272	47	8	10	33	1.68
29317146--29317211	31	2.1	31	83	5	80	30	10	13	45	1.77
29318044--29318151	54	2.0	54	98	0	207	38	14	12	34	1.84
29318821--29318896	17	4.6	16	79	8	80	18	32	19	28	1.96
29318824--29318896	33	2.1	34	85	5	94	16	34	19	30	1.94
29325402--29325526	46	2.7	46	81	7	119	35	28	16	19	1.94
29337493--29337534	21	2.0	21	86	4	59	23	4	21	50	1.68
29338151--29338206	29	2.0	28	92	3	94	19	19	28	32	1.97
29339018--29339199	37	4.9	37	93	1	285	25	29	18	25	1.98
29339346--29340312	48	20.1	48	98	0	1808	31	25	6	37	1.81
29343609--29343669	30	2.0	30	100	0	122	29	6	19	44	1.76
29344060--29344089	12	2.5	12	94	0	51	13	30	40	16	1.87
29344413--29344450	16	2.3	17	90	4	60	34	0	23	42	1.55
29346393--29346713	46	6.7	50	76	11	198	28	19	28	23	1.98
29347311--29347392	37	2.2	37	97	0	155	30	3	20	45	1.69
29359395--29359484	23	3.9	24	81	7	98	35	16	21	26	1.94
29375495--29375568	36	2.1	36	94	0	130	28	8	13	50	1.70
29376801--29376894	40	2.4	39	85	3	118	12	11	38	37	1.80
29384598--29384776	27	6.6	27	83	5	191	29	27	15	27	1.96
29384624--29384774	82	1.9	81	87	4	223	28	27	15	27	1.96
29385328--29385352	13	1.9	13	100	0	50	32	16	20	32	1.94
29392447--29392625	27	6.6	27	83	5	191	29	27	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29392473--29392623	82	1.9	81	87	4	223	28	27	15	27	1.96
29393173--29393197	13	1.9	13	100	0	50	32	16	20	32	1.94
29407704--29407768	28	2.3	28	89	5	96	35	26	9	29	1.87
29407874--29407988	27	4.1	28	79	7	92	20	21	21	36	1.95
29407874--29407974	27	3.6	28	79	4	105	21	22	21	33	1.97
29407874--29407988	55	2.1	55	80	8	126	20	21	21	36	1.95
29413112--29413296	79	2.3	81	82	7	218	24	22	27	25	2.00
29413113--29413296	40	4.6	40	80	9	198	25	22	27	25	2.00
29413165--29413329	79	2.1	79	82	6	192	26	20	27	25	1.99
29418758--29418822	28	2.3	28	94	0	112	33	27	7	30	1.85
29418928--29419017	28	3.2	27	85	7	119	20	24	23	32	1.98
29418928--29419042	55	2.1	56	83	8	146	19	24	21	34	1.96
29419481--29419519	19	2.1	19	85	0	51	15	5	7	71	1.26
29420110--29420143	10	3.3	10	84	8	50	29	8	8	52	1.62
29424228--29424259	8	4.0	8	91	0	55	46	25	25	3	1.67
29424507--29424598	28	3.3	28	92	0	148	34	26	8	30	1.86
29424704--29424793	27	3.2	28	81	7	112	20	23	23	33	1.97
29424704--29424818	55	2.1	56	82	11	139	19	23	21	35	1.96
29434240--29434322	41	2.0	42	88	2	123	34	13	7	44	1.71
29442809--29442836	13	2.2	13	100	0	56	32	32	28	7	1.84
29455918--29455960	21	2.1	19	83	12	50	39	2	0	58	1.11
29457136--29457399	78	3.5	77	79	10	285	20	36	3	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29458019--29458044	12	2.2	12	100	0	52	19	0	7	73	1.07
29463971--29464085	43	2.7	43	84	1	133	35	26	11	26	1.90
29464549--29464588	19	2.0	20	86	13	57	37	0	0	62	0.95
29464547--29464595	25	2.0	24	96	4	89	38	0	0	61	0.96
29467851--29468481	314	2.0	314	100	0	1262	48	7	9	34	1.64
29473750--29473927	27	6.6	27	84	3	205	29	28	15	26	1.96
29473771--29473926	82	1.9	81	88	3	233	29	28	15	26	1.96
29478976--29479024	13	3.7	13	76	13	55	71	12	4	12	1.28
29478962--29479038	26	2.8	27	88	9	111	75	7	6	10	1.19
29487636--29487869	116	2.0	116	93	1	398	26	21	11	41	1.87
29489697--29490136	44	9.5	44	70	15	248	29	16	24	29	1.96
29489892--29489921	14	2.1	14	100	0	60	30	13	36	20	1.90
29489906--29490136	89	2.6	88	85	5	279	27	16	26	29	1.97
29490025--29490274	94	2.7	91	77	9	224	29	20	21	29	1.98
29490212--29490376	88	1.9	88	79	2	188	30	19	23	26	1.98
29493753--29493787	13	2.7	13	90	0	61	5	37	28	28	1.80
29512163--29512212	26	2.0	25	88	4	73	42	0	4	54	1.19
29514589--29514627	20	1.9	21	89	5	62	58	0	7	33	1.26
29515833--29515900	34	2.0	34	100	0	136	52	8	11	26	1.67
29518981--29519063	42	2.0	42	95	0	148	33	18	18	30	1.94
29525315--29525422	57	1.9	57	90	0	171	32	13	16	37	1.88
29526121--29526179	22	2.8	20	78	14	64	42	1	3	52	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29527040--29527116	14	5.1	14	72	16	55	32	1	3	62	1.22
29527684--29527724	18	2.2	19	83	12	50	26	4	4	63	1.35
29533160--29533188	14	2.1	14	100	0	58	31	13	34	20	1.92
29535715--29535852	69	2.0	69	90	2	215	37	16	17	28	1.92
29549740--29549782	20	2.2	20	100	0	86	32	20	18	27	1.96
29551316--29551372	19	2.8	19	82	12	69	35	10	17	36	1.84
29551306--29551356	19	2.9	17	81	13	59	37	9	17	35	1.83
29551316--29551358	19	2.1	21	91	8	72	37	9	18	34	1.83
29554646--29554976	44	7.5	44	72	10	210	35	17	21	25	1.95
29554668--29554976	132	2.3	132	89	1	456	33	18	21	26	1.96
29554927--29555852	175	5.3	175	94	0	1555	33	18	20	28	1.96
29556321--29556382	19	3.2	19	95	4	106	37	9	17	35	1.83
29559589--29559688	44	2.2	45	85	3	130	30	23	13	34	1.92
29559605--29559693	46	2.0	44	91	4	142	28	25	13	32	1.94
29564945--29564999	24	2.2	24	81	9	58	12	9	14	63	1.51
29570085--29570131	23	2.0	23	100	0	94	29	14	8	46	1.74
29577972--29578082	25	4.4	25	75	4	98	31	21	22	24	1.98
29577973--29578082	50	2.2	50	85	0	139	31	21	21	24	1.98
29578389--29578427	16	2.5	15	84	15	53	35	15	0	48	1.45
29578396--29578429	16	2.1	17	94	5	61	29	20	0	50	1.49
29584204--29584314	53	2.1	53	100	0	222	38	14	12	34	1.84
29586924--29586965	22	2.0	21	85	4	57	30	2	11	54	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29589306--29589347	19	2.2	20	86	4	59	69	2	0	28	1.01
29589297--29589359	31	2.0	32	84	3	83	65	1	0	33	1.03
29590312--29590369	30	1.9	30	92	0	98	55	17	3	24	1.57
29592794--29592872	37	2.1	37	88	0	113	40	15	1	43	1.54
29592875--29592958	44	1.9	44	82	4	107	36	13	2	47	1.55
29592894--29592977	44	1.9	43	82	2	105	35	15	2	46	1.59
29599795--29599859	28	2.3	28	75	0	67	26	0	23	50	1.49
29600415--29600459	20	2.2	21	84	4	56	13	2	20	64	1.38
29606329--29606356	13	2.2	13	100	0	56	42	0	7	50	1.30
29621644--29621674	16	1.9	16	93	0	53	77	6	3	12	1.08
29650466--29650560	47	2.0	47	97	0	181	47	10	3	38	1.54
29650785--29650831	21	2.3	20	92	3	76	19	29	8	42	1.80
29651012--29651071	19	3.1	19	82	4	75	38	18	28	15	1.91
29653647--29653699	16	3.2	16	94	5	97	24	0	37	37	1.56
29653680--29653770	45	2.0	45	85	2	121	27	6	28	37	1.82
29653935--29653969	18	2.0	17	88	5	52	54	0	0	45	0.99
29654050--29654107	16	3.7	15	86	6	80	51	0	0	48	1.00
29654034--29654107	31	2.4	31	84	10	91	51	1	0	47	1.09
29654055--29654117	18	3.8	18	74	23	57	50	1	0	47	1.10
29654083--29654227	47	3.2	46	72	16	156	49	3	2	44	1.30
29654081--29654203	44	2.7	43	71	17	106	48	2	2	46	1.28
29654205--29654238	16	2.1	16	89	10	52	50	5	0	44	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29654479--29654609	66	2.0	66	92	0	217	35	20	11	32	1.89
29659576--29659619	23	1.9	23	90	0	70	38	4	9	47	1.56
29666710--29666774	32	2.0	33	93	3	114	3	16	16	63	1.44
29671954--29671978	3	8.3	3	100	0	50	32	0	32	36	1.58
29674357--29674443	28	3.2	26	67	20	70	66	9	9	14	1.43
29674357--29674447	30	3.2	30	68	23	95	68	8	8	14	1.39
29674342--29674447	56	1.9	56	100	0	212	64	10	10	15	1.50
29674830--29675271	221	2.0	221	99	0	875	38	12	10	37	1.79
29702932--29703058	61	2.1	61	100	0	254	36	7	18	37	1.80
29714159--29714352	100	1.9	99	88	1	289	26	18	12	41	1.87

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