genome.fa.s20.2.7.7.80.10.50.1000.94.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  94  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)
30844549--30844581	11	2.9	12	86	13	52	27	0	15	57	1.38
30844549--30844581	10	3.0	11	91	8	50	27	0	15	57	1.38
30853167--30853554	193	2.0	193	99	0	767	22	20	19	37	1.94
30856818--30856872	26	2.1	26	100	0	110	61	9	10	18	1.54
30866534--30866677	74	1.9	74	97	0	270	34	25	20	19	1.96
30869961--30870018	30	1.9	30	89	0	89	24	29	25	20	1.99
30877599--30877633	17	2.1	17	94	0	61	14	17	28	40	1.88
30879461--30879732	46	5.8	45	74	10	192	27	17	29	25	1.98
30879503--30879779	49	5.8	49	73	13	170	28	18	28	24	1.98
30879512--30879776	142	1.9	138	84	6	354	27	18	28	25	1.98
30891969--30892138	46	3.7	46	76	10	175	23	19	27	30	1.98
30891963--30892133	93	1.8	93	88	0	261	22	19	27	29	1.98
30896451--30896521	35	2.0	35	100	0	142	45	14	0	40	1.44
30898104--30898147	21	2.0	21	86	4	61	43	13	11	31	1.80
30899988--30900041	27	1.9	29	81	7	67	25	9	16	48	1.76
30900499--30900744	122	2.0	122	94	1	431	55	1	7	35	1.39
30900629--30900687	23	2.5	25	82	17	74	52	1	1	44	1.21
30901209--30901260	18	2.9	17	75	11	50	34	1	1	61	1.18
30901523--30901863	98	3.5	98	99	0	675	31	7	18	42	1.79
30906335--30906411	27	2.8	28	71	13	70	38	0	3	57	1.17
30908506--30908722	46	4.7	46	89	2	256	42	14	23	19	1.87
30908820--30908889	13	5.3	13	68	1	50	35	2	24	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30908820--30908869	26	1.9	26	83	0	64	36	2	22	40	1.65
30919790--30919847	28	2.0	31	83	10	77	67	3	1	27	1.17
30923149--30923217	32	2.2	32	100	0	138	55	8	18	17	1.67
30937902--30937988	40	2.2	40	80	0	102	26	18	22	32	1.97
30937994--30938106	28	4.0	28	80	0	127	29	13	28	29	1.94
30943107--30943149	19	2.3	19	100	0	86	32	16	18	32	1.93
30950802--30950913	55	2.0	55	96	3	208	26	14	19	39	1.90
30953170--30953301	66	2.0	66	95	0	237	17	27	21	33	1.96
30955375--30955542	46	3.6	45	76	12	153	30	28	19	22	1.97
30955376--30955546	93	1.8	93	89	0	270	30	28	19	21	1.97
30957232--30957358	64	2.0	64	93	0	218	51	16	24	7	1.69
30957757--30957799	19	2.3	19	95	0	77	30	18	18	32	1.95
30958505--30958586	40	2.0	40	90	0	128	24	18	25	31	1.97
30958505--30958612	40	2.7	40	84	5	121	25	16	26	30	1.97
30958600--30958681	28	2.9	28	83	3	112	23	13	30	32	1.93
30964626--30964809	40	4.6	40	78	5	192	25	25	22	26	2.00
30964590--30964809	80	2.8	80	80	6	218	25	25	22	25	2.00
30971574--30971609	9	4.0	9	89	10	56	66	8	2	22	1.31
30971576--30971609	17	1.9	18	94	5	61	67	5	2	23	1.26
30973306--30973428	61	2.0	61	98	0	237	21	8	18	51	1.72
30974104--30974203	51	2.0	51	84	4	130	21	2	52	25	1.58
30977604--30977662	28	2.1	29	96	3	111	59	15	0	25	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30977604--30977671	28	2.3	29	90	5	93	57	14	0	27	1.38
30977518--30977844	163	2.0	163	100	0	654	44	18	3	33	1.68
30977767--30977825	28	2.1	29	96	3	111	59	15	0	25	1.36
30977767--30977834	28	2.3	29	90	5	93	57	14	0	27	1.38
30978175--30978384	113	1.9	113	86	6	300	46	15	7	30	1.74
30978867--30978900	17	2.0	17	88	11	52	29	0	0	70	0.87
30980855--30980925	16	4.6	16	76	11	67	18	2	16	61	1.45
30980855--30980925	31	2.3	31	78	7	81	18	2	16	61	1.45
30981906--30981932	10	2.7	10	100	0	54	22	0	0	77	0.76
30983054--30983102	20	2.5	20	86	0	62	57	6	4	32	1.42
30989399--30989741	184	1.9	184	98	0	659	34	17	18	29	1.94
30990054--30990732	82	8.2	81	73	12	465	45	12	11	30	1.77
30990036--30990736	167	4.2	164	76	12	657	44	11	12	30	1.78
30990002--30990637	334	1.9	334	100	0	1272	46	11	11	30	1.76
30990884--30990925	20	2.1	20	86	8	59	66	0	0	33	0.92
30990880--30990925	14	3.3	14	84	6	58	67	0	0	32	0.91
30992720--30992768	24	2.0	24	96	0	89	20	4	10	65	1.39
31008743--31008795	17	3.4	17	75	20	69	13	11	20	54	1.69
31008742--31008800	30	2.0	30	96	0	109	13	11	20	54	1.70
31012833--31012951	32	4.0	27	83	12	78	25	4	18	52	1.63
31012860--31012952	32	2.9	32	95	0	168	25	4	18	51	1.64
31014309--31014344	14	2.6	14	95	0	63	41	19	5	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31015412--31015444	13	2.5	14	85	14	52	0	21	0	78	0.75
31021607--31021650	14	2.8	16	86	10	56	27	0	6	65	1.17
31022318--31022351	17	2.0	17	94	0	59	79	0	2	17	0.86
31022367--31022401	18	1.9	18	88	0	52	62	0	2	34	1.10
31026362--31026458	51	1.9	50	83	6	124	45	13	2	39	1.55
31038556--31038609	28	2.0	27	96	3	99	44	7	9	38	1.65
31039248--31039302	27	2.0	28	85	3	76	20	30	23	25	1.98
31039256--31039322	27	2.5	26	78	9	71	25	26	20	26	1.99
31044621--31044660	13	3.3	12	83	10	55	70	0	2	27	1.01
31044623--31044668	24	1.9	24	86	8	67	69	0	2	28	1.00
31045061--31045094	17	1.9	18	94	5	61	23	2	0	73	0.97
31045064--31045123	26	2.3	26	82	8	68	28	5	1	65	1.23
31045158--31045216	9	6.3	9	77	14	66	33	1	1	62	1.15
31045158--31045212	19	3.0	20	84	7	64	34	1	1	61	1.17
31047211--31047244	12	2.8	12	86	0	50	38	17	8	35	1.81
31047192--31047250	31	1.9	30	86	3	82	38	16	8	35	1.80
31054117--31054154	20	1.9	20	84	10	51	42	10	0	47	1.38
31064615--31064698	28	3.0	28	89	1	123	45	30	4	19	1.71
31064739--31064768	13	2.2	14	94	5	53	36	36	3	23	1.71
31064744--31064782	13	3.0	13	88	0	51	33	41	0	25	1.56
31066823--31067061	55	4.5	54	76	8	215	35	16	25	23	1.95
31066830--31067079	108	2.4	110	79	9	286	34	16	25	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31067269--31067299	16	1.9	16	93	0	53	41	0	22	35	1.54
31069105--31069135	13	2.4	13	94	0	53	51	0	0	48	1.00
31072346--31072397	25	2.1	25	82	7	61	51	23	7	17	1.70
31077376--31077493	43	2.8	43	79	8	125	22	17	26	33	1.96
31081722--31081866	24	6.0	24	85	5	195	29	21	20	28	1.98
31081915--31081981	20	3.3	20	93	0	116	32	20	11	34	1.90
31081915--31081970	11	5.5	11	71	16	57	32	19	12	35	1.89
31088389--31088452	31	2.1	31	93	0	110	23	23	15	37	1.93
31088646--31088715	23	2.9	24	85	10	90	28	22	20	28	1.98
31088667--31088716	23	2.2	23	96	0	91	32	20	18	30	1.96
31088753--31088819	20	3.3	20	93	0	116	32	20	11	34	1.90
31088753--31088808	11	5.5	11	71	16	57	32	19	12	35	1.89
31094286--31094973	341	2.0	344	91	1	1112	26	17	27	28	1.98
31107607--31107715	57	1.9	57	86	0	155	30	34	11	23	1.90
31115484--31115674	91	2.1	90	85	2	249	29	15	20	34	1.94
31124787--31124824	19	2.0	20	85	15	53	57	5	5	31	1.43
31125159--31125200	2	21.0	2	100	0	84	0	50	0	50	1.00
31127991--31128023	16	2.1	16	100	0	66	48	6	12	33	1.65
31128867--31128915	21	2.3	20	89	6	71	18	38	26	16	1.91
31132372--31132401	12	2.5	12	88	0	51	40	16	20	23	1.91
31133973--31134049	24	3.3	23	81	5	75	35	14	19	31	1.92
31133958--31134108	46	3.2	47	76	9	139	31	18	21	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31134011--31134109	23	4.3	23	80	8	89	31	18	23	27	1.97
31141164--31141243	24	3.3	25	84	8	78	33	21	20	25	1.97
31141176--31141246	24	3.0	24	91	6	110	36	16	19	26	1.94
31141185--31141344	23	7.0	22	80	5	124	34	18	21	25	1.96
31146836--31146919	29	2.9	29	89	0	123	16	16	34	32	1.92
31147912--31147980	23	3.0	23	100	0	138	39	17	17	26	1.91
31171853--31172018	31	5.4	31	74	11	153	40	1	6	51	1.34
31171831--31172025	61	3.2	61	88	1	293	42	1	6	49	1.35
31173806--31173879	31	2.4	31	81	0	85	45	0	2	51	1.15
31173820--31173887	31	2.3	31	84	5	86	44	0	4	51	1.21

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