genome.fa.s23.2.7.7.80.10.50.1000.125.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  125  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)
41856946--41857059	57	2.0	57	98	0	219	37	11	22	28	1.89
41857331--41857385	21	2.5	23	82	14	71	52	0	7	40	1.29
41857513--41857537	12	2.1	12	100	0	50	16	24	20	40	1.91
41857625--41857655	6	5.2	6	96	0	53	16	19	16	48	1.81
41857771--41857822	18	2.8	19	76	5	61	30	9	11	48	1.72
41857848--41857962	18	6.3	18	72	8	81	36	8	13	40	1.76
41864928--41864952	13	1.9	13	100	0	50	56	4	8	32	1.47
41867559--41867601	19	2.2	20	84	12	54	20	4	0	74	1.00
41871552--41871609	28	2.1	28	100	0	116	31	13	24	31	1.94
41872532--41872630	49	2.0	49	90	1	155	36	8	36	19	1.81
41875139--41875350	40	5.3	40	87	4	243	25	21	28	25	1.99
41875086--41875350	80	3.3	80	81	6	272	25	21	27	25	1.99
41875139--41875383	80	3.1	80	80	5	205	26	21	28	24	1.99
41879381--41879435	27	2.0	27	86	6	76	16	3	7	72	1.21
41880039--41880073	11	3.2	11	84	15	54	0	20	0	80	0.72
41898636--41898756	46	2.6	46	90	2	179	32	28	19	19	1.96
41898581--41898769	46	4.1	45	73	14	136	31	28	18	21	1.97
41899184--41899243	30	2.0	30	90	0	93	30	25	8	36	1.85
41906584--41906639	29	1.9	29	88	0	85	30	25	8	35	1.86
41913866--41913999	47	2.9	48	82	5	159	24	30	19	25	1.98
41917586--41917618	13	2.6	13	90	4	50	39	0	12	48	1.40
41919383--41919599	46	4.7	46	75	12	178	23	29	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41919432--41919602	94	1.8	92	85	7	238	23	28	20	28	1.99
41925742--41925787	25	1.9	23	86	8	65	63	8	0	28	1.24
41926684--41926721	20	1.9	20	100	0	76	55	0	13	31	1.38
41928673--41928697	12	2.1	12	100	0	50	8	28	40	24	1.83
41932725--41932789	31	2.1	32	85	5	89	30	24	13	30	1.94
41933029--41933080	25	2.1	25	82	3	61	26	17	21	34	1.95
41933129--41933176	20	2.3	21	92	3	80	35	18	10	35	1.85
41942560--41942624	31	2.1	32	88	5	98	29	24	15	30	1.96
41942871--41942940	25	2.8	25	93	0	122	25	22	25	25	2.00
41975631--41975676	5	9.2	5	100	0	92	19	0	0	80	0.71
41976877--41976926	20	2.2	24	80	16	63	58	6	0	36	1.23
41976878--41976925	23	2.2	20	85	10	60	56	6	0	37	1.25
41976916--41976955	20	2.1	19	85	4	53	62	5	0	32	1.17
41981492--41981527	18	1.9	19	94	5	65	72	13	0	13	1.13
41982021--41982062	21	2.0	21	90	0	66	33	16	0	50	1.46
41984023--41984133	43	2.6	43	82	12	115	25	19	26	28	1.99
41985750--41985787	18	2.1	18	100	0	76	10	21	10	57	1.61
41985878--41985913	12	2.8	13	91	8	65	38	5	5	50	1.49
41986843--41986911	33	2.1	33	89	8	104	42	11	0	46	1.40
41987574--41987619	22	2.1	22	84	8	58	67	4	0	28	1.10
41989791--41989831	20	2.0	20	100	0	82	36	4	19	39	1.73
41990318--41990444	44	2.9	43	78	6	148	23	16	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41991640--41991747	26	4.2	26	91	0	180	32	8	24	35	1.85
41997249--41997310	28	2.2	28	80	5	72	41	17	4	35	1.71
41997276--41997373	18	5.4	18	91	0	142	39	18	10	31	1.84
41997273--41997373	36	2.8	36	89	0	157	39	18	9	31	1.84
41997267--41997373	54	1.9	56	88	3	164	39	18	10	31	1.84
41997437--41997537	47	2.1	47	83	3	123	32	22	20	23	1.98
41998717--41998741	13	1.9	13	100	0	50	0	32	0	68	0.90
41998764--41998802	19	2.1	19	85	9	53	5	15	2	76	1.06
41998816--41998846	5	6.2	5	96	0	53	54	0	0	45	0.99
41999070--41999111	17	2.5	17	80	0	57	45	40	11	2	1.54
42000171--42000243	17	3.9	18	75	16	69	26	8	4	61	1.42
42000154--42000243	20	4.6	20	70	16	71	24	8	3	63	1.39
42000154--42000243	40	2.3	40	80	16	107	24	8	3	63	1.39
42000299--42000358	3	19.7	3	80	10	68	35	5	0	60	1.19
42000453--42000494	3	14.0	3	100	0	84	33	0	0	66	0.92
42000853--42000934	11	7.7	11	73	17	66	36	2	4	56	1.34
42000864--42000940	20	4.0	20	78	11	79	37	1	3	57	1.26
42000842--42000922	13	5.9	15	69	19	52	37	3	3	55	1.35
42000837--42000903	28	2.5	28	80	4	75	35	2	2	58	1.29
42000841--42000925	39	2.1	42	84	6	113	36	3	3	56	1.34
42001011--42001039	14	2.0	15	93	6	51	13	13	10	62	1.55
42007582--42007645	33	1.9	33	96	0	119	43	7	20	28	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42015004--42015103	52	1.9	52	93	0	173	31	27	18	24	1.97
42015064--42015148	44	1.9	44	87	0	125	32	29	16	21	1.95
42017522--42017623	51	2.0	51	98	0	195	34	24	7	33	1.84
42019907--42020050	42	3.4	42	76	9	150	45	15	21	17	1.85
42019888--42020043	21	7.5	21	70	7	86	44	16	20	17	1.86
42019910--42020099	84	2.3	84	85	1	256	45	14	20	20	1.85
42019946--42020103	42	3.8	42	72	3	120	46	13	18	20	1.83
42025159--42025221	21	3.2	20	82	14	78	44	20	22	12	1.85
42025173--42025232	21	3.0	21	88	9	81	45	20	18	16	1.86
42032134--42032998	39	22.2	39	99	0	1694	28	30	20	20	1.98
42039438--42039551	39	2.9	39	93	0	192	28	30	20	21	1.98
42052065--42052140	30	2.6	29	79	10	82	30	1	0	68	0.98
42052072--42052122	18	2.8	20	77	17	65	33	1	0	64	1.05
42052065--42052137	28	2.5	28	81	16	78	31	1	0	67	1.00
42052099--42052127	12	2.5	12	94	5	51	34	0	0	65	0.93
42052263--42052295	17	1.9	17	93	0	57	36	6	0	57	1.23
42052251--42052354	12	8.7	12	71	18	58	29	5	1	62	1.29
42052252--42052352	27	3.6	27	74	11	80	30	5	1	61	1.31
42052341--42052399	21	3.0	19	73	9	64	27	3	5	64	1.30
42053770--42053879	45	2.4	45	86	0	157	21	19	16	42	1.89
42053755--42053879	45	2.6	50	75	15	125	21	20	16	41	1.90
42056515--42056618	41	2.6	41	83	4	122	29	21	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42057404--42057446	15	2.6	16	85	14	61	0	25	0	74	0.82
42057437--42057469	16	2.1	16	88	11	50	6	21	3	69	1.24
42057471--42057510	21	1.9	21	90	10	64	17	5	2	75	1.10
42060683--42060768	22	3.9	22	73	0	73	38	18	20	22	1.94
42061518--42061568	25	2.0	25	100	0	102	35	27	7	29	1.85
42080138--42080242	26	4.0	26	91	0	174	33	7	22	36	1.83
42087241--42087296	26	2.2	26	93	0	94	30	5	25	39	1.78
42090165--42090217	27	2.0	27	96	3	99	50	0	22	26	1.49
42091807--42091892	18	4.7	18	82	1	100	40	13	9	36	1.77
42091807--42091895	36	2.4	37	83	1	126	39	14	10	35	1.80
42092008--42092032	6	4.2	6	100	0	50	52	16	16	16	1.76
42092026--42092132	47	2.3	47	85	0	151	41	22	18	17	1.91
42097289--42097343	27	2.0	28	83	16	71	40	1	12	45	1.53
42103974--42104015	16	2.6	16	82	10	50	52	2	2	42	1.27
42121323--42121405	28	3.0	28	89	0	121	28	27	14	28	1.95
42124040--42124088	22	2.1	22	82	14	55	42	2	6	48	1.39
42134964--42135007	19	2.4	19	88	3	63	31	6	18	43	1.76
42134972--42135009	19	2.0	19	100	0	76	26	5	15	52	1.64
42135305--42135414	40	2.8	39	80	2	112	29	27	18	25	1.98
42135328--42135523	40	4.6	40	74	17	155	25	29	22	22	1.99
42135365--42135466	51	2.0	52	90	1	161	28	30	20	20	1.98
42143372--42143520	39	3.8	39	86	1	145	28	27	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42143395--42143520	39	3.2	39	93	1	207	28	27	19	23	1.99
42152446--42152503	26	2.2	25	79	8	62	18	22	22	36	1.95
42165010--42165374	27	13.7	27	81	5	404	38	20	10	30	1.87
42165010--42165401	53	7.3	54	81	3	386	37	20	11	30	1.88
42165010--42165374	80	4.6	79	85	3	419	38	20	10	30	1.87
42165327--42165413	27	3.3	27	83	4	79	37	18	16	27	1.92
42173079--42173144	33	2.0	33	90	0	105	22	28	12	36	1.90
42179167--42179239	26	2.8	26	78	10	78	17	26	21	34	1.96
42179276--42179385	25	4.5	25	67	13	75	21	28	20	30	1.98
42179203--42179443	73	3.3	73	97	1	439	23	26	18	31	1.98

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