genome.fa.s20.2.7.7.80.10.50.1000.97.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  97  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)
31780892--31781012	46	2.6	46	85	2	163	21	23	12	42	1.87
31785237--31785443	53	3.8	53	74	5	200	37	18	23	21	1.94
31790551--31790633	43	1.9	43	90	0	130	16	25	31	26	1.97
31790924--31790958	14	2.5	14	90	0	61	37	14	17	31	1.89
31792711--31792976	41	6.6	41	92	0	430	34	21	24	19	1.96
31792978--31793108	46	2.7	47	80	5	138	45	30	3	19	1.68
31793944--31793968	6	4.2	6	100	0	50	0	48	0	52	1.00
31794607--31794659	7	7.6	7	100	0	106	60	0	13	26	1.33
31794606--31794666	14	4.4	14	93	0	86	63	0	11	24	1.27
31794788--31794842	30	2.0	26	86	13	74	72	0	7	20	1.07
31794873--31794917	22	2.0	22	91	0	72	55	17	17	8	1.67
31810931--31810959	5	5.8	5	100	0	58	62	0	0	37	0.96
31812043--31812069	14	1.9	14	100	0	54	74	0	0	25	0.83
31816528--31816737	47	4.4	47	89	4	305	32	8	30	27	1.87
31816635--31816709	22	3.3	22	65	17	62	32	10	30	26	1.90
31816539--31816716	96	1.9	95	92	2	304	30	10	32	26	1.89
31816528--31816737	96	2.2	94	85	8	298	32	8	30	27	1.87
31829829--31829940	28	4.0	28	82	2	109	30	23	16	30	1.96
31837293--31837326	12	2.8	12	81	0	50	23	41	17	17	1.90
31848347--31848518	40	4.3	40	85	0	229	24	20	26	28	1.99
31852275--31852299	6	4.2	6	100	0	50	68	0	0	32	0.90
31855651--31855786	40	3.4	42	77	9	131	31	26	13	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31856996--31857027	11	2.9	11	95	0	55	34	6	18	40	1.76
31858436--31858688	68	3.9	63	77	12	192	29	16	30	23	1.97
31867086--31867268	78	2.3	78	84	1	233	27	19	20	32	1.97
31870491--31870516	12	2.2	12	100	0	52	34	23	19	23	1.96
31899257--31899332	6	12.3	6	73	15	66	47	14	19	18	1.83
31899262--31899332	25	2.8	25	89	0	106	46	15	19	18	1.84
31899257--31899361	31	3.6	30	78	16	112	48	13	18	20	1.80
31899262--31899350	25	3.3	25	77	17	97	46	14	19	20	1.84
31900246--31901475	27	45.3	27	88	1	1490	24	23	20	32	1.98
31900247--31901475	54	22.6	54	94	2	1996	24	23	20	32	1.98
31900388--31900458	35	2.0	35	86	5	99	25	30	14	29	1.94
31901496--31901853	27	13.3	27	82	4	373	31	9	19	39	1.83
31901406--31901853	81	5.5	81	79	5	379	30	10	19	39	1.85
31906296--31906374	37	2.1	37	86	4	106	25	29	18	26	1.98
31906493--31906702	47	4.5	47	87	0	294	28	30	9	32	1.88
31921059--31921272	42	5.1	42	79	7	204	28	26	16	28	1.97
31924683--31924749	27	2.5	27	79	11	75	50	2	1	44	1.26
31932382--31932507	46	2.7	46	80	7	130	26	19	29	24	1.98
31939991--31940105	46	2.5	46	87	5	151	27	19	31	21	1.97
31941360--31941403	22	2.0	22	91	4	72	9	34	29	27	1.87
31943296--31943385	45	2.0	45	97	0	171	45	20	15	18	1.85
31948713--31948737	13	1.9	13	100	0	50	16	8	4	72	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31954473--31954497	13	1.9	13	100	0	50	20	40	24	16	1.91
31958922--31958962	14	2.9	15	85	10	59	48	12	9	29	1.72
31959527--31959589	30	2.1	30	82	5	74	52	0	0	47	1.00
31967253--31967310	11	5.0	12	74	14	50	53	0	0	46	1.00
31973262--31973305	22	2.0	22	95	0	79	34	15	27	22	1.95
31978136--31978280	71	2.0	71	98	0	281	33	12	19	34	1.89
31978189--31979163	490	2.0	490	97	0	1844	37	8	21	32	1.83
31981573--31981633	22	2.7	22	72	20	54	47	3	19	29	1.65
31981742--31981852	45	2.5	45	83	0	150	25	18	13	42	1.87
31982077--31982153	18	4.3	18	78	1	66	35	10	15	38	1.82
31984223--31984307	34	2.5	34	90	3	127	25	20	23	30	1.98
31988912--31989131	111	2.0	111	92	0	368	38	10	10	40	1.74
31989168--31989291	57	2.1	58	82	2	160	27	16	5	50	1.68
31991902--31992023	25	4.9	25	73	14	83	32	21	25	20	1.97
31991968--31992057	26	3.5	26	78	4	85	36	24	23	15	1.94
31997918--31997960	17	2.5	17	92	0	68	18	25	23	32	1.97
31999014--31999088	24	3.2	23	73	16	64	17	32	17	33	1.93
31999248--31999391	24	6.0	24	70	9	105	18	24	20	36	1.95
32001237--32001329	44	2.1	44	94	4	161	22	7	23	46	1.77
32001672--32002086	138	3.0	138	97	0	778	22	13	19	44	1.85
32004651--32004713	27	2.5	24	80	12	63	39	1	1	57	1.18
32004942--32004978	17	2.2	17	90	0	56	56	0	2	40	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32005371--32005429	10	6.6	9	76	17	52	69	1	1	27	1.07
32005371--32005428	19	3.1	18	80	14	64	70	1	1	25	1.06
32005368--32005436	27	2.6	26	86	9	86	66	1	1	30	1.09
32005365--32005437	9	8.2	9	74	17	55	67	1	1	30	1.08
32006294--32006337	22	2.0	22	86	0	61	38	2	20	38	1.65
32007400--32007439	19	2.1	19	100	0	80	47	0	5	47	1.24
32007472--32007554	3	27.7	3	100	0	166	66	0	0	33	0.92
32009929--32009967	18	2.2	18	90	4	62	48	5	0	46	1.24
32015628--32015743	25	4.6	25	85	2	117	21	23	18	36	1.95
32015653--32015749	25	3.9	25	88	0	131	20	23	19	36	1.95
32015686--32015765	25	3.2	25	83	1	63	21	21	21	36	1.96
32018873--32018954	25	3.2	26	78	13	82	20	20	21	36	1.95
32018988--32019051	24	2.7	23	79	11	67	17	23	23	35	1.95
32018999--32019054	24	2.3	24	84	6	69	17	25	21	35	1.95
32020344--32020368	12	2.1	12	100	0	50	40	8	24	28	1.83
32020434--32020472	20	2.0	20	89	0	60	23	2	17	56	1.53
32024141--32024191	15	3.4	15	82	15	61	50	5	1	41	1.37
32025826--32025920	40	2.4	40	87	3	129	35	23	20	21	1.96
32025788--32025955	40	4.3	40	79	8	123	33	23	20	23	1.97
32025848--32026267	152	2.7	153	83	4	497	29	22	20	27	1.98
32026595--32026639	14	3.2	14	78	12	56	26	0	24	48	1.51
32026755--32026796	7	6.0	7	81	10	50	14	0	50	35	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32026755--32026796	13	3.0	14	79	10	50	14	0	50	35	1.43
32026707--32026796	21	4.3	21	72	13	80	16	1	46	35	1.55
32027196--32027254	14	4.1	15	79	12	63	20	0	32	47	1.50
32030252--32030283	13	2.4	14	94	5	57	37	0	9	53	1.34
32030960--32031037	31	2.5	31	85	2	93	14	6	19	60	1.55
32031127--32031289	43	3.8	44	83	4	190	26	30	15	26	1.96
32031846--32031890	18	2.4	19	88	11	74	46	26	0	26	1.53
32032127--32032271	73	2.0	73	98	0	281	44	8	15	31	1.77
32035795--32035842	22	2.3	20	79	13	53	52	0	2	45	1.12
32039182--32039274	9	10.3	9	88	0	132	31	9	24	34	1.88
32039182--32039274	27	3.4	27	92	0	159	31	9	24	34	1.88
32040237--32040267	15	2.1	15	93	0	53	51	0	0	48	1.00
32040455--32040522	34	2.0	34	97	0	127	51	2	16	29	1.59
32044520--32044573	20	2.6	21	82	11	67	37	0	5	57	1.22
32044559--32044607	3	17.3	3	76	19	52	28	2	0	69	1.00
32044563--32044601	11	3.5	11	92	0	69	28	2	0	69	1.02
32044559--32044600	19	2.2	19	87	8	59	26	2	0	71	0.98
32046740--32046965	46	4.9	46	90	0	317	39	15	26	19	1.90
32051215--32051245	6	5.2	6	96	0	53	54	16	12	16	1.71
32051511--32051556	22	2.1	22	88	8	67	17	10	0	71	1.13
32051559--32051603	3	15.7	3	78	17	51	35	0	2	62	1.08
32051549--32051612	32	2.0	32	87	9	94	39	0	1	59	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32056329--32056378	26	1.9	26	95	0	91	34	12	16	38	1.85
32058969--32059016	23	2.1	23	100	0	96	8	12	20	58	1.60
32060859--32060933	37	2.0	38	97	2	143	29	10	18	41	1.84
32061584--32061698	47	2.4	47	78	8	119	35	4	0	60	1.17
32064380--32064451	37	1.9	37	85	0	99	27	4	13	54	1.58
32067407--32067489	41	2.0	41	97	0	157	51	15	19	13	1.75
32073566--32073660	40	2.4	39	82	6	111	24	29	22	24	1.99
32073599--32073674	40	1.9	40	100	0	152	27	25	22	25	2.00
32087939--32087967	12	2.4	12	100	0	58	13	0	6	79	0.93
32093472--32093649	40	4.5	40	85	3	218	23	23	28	24	1.99

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