genome.fa.s23.2.7.7.80.10.50.1000.31.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  31  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)
9268635--9268687	19	2.7	20	74	8	56	13	15	9	62	1.54
9288661--9288738	23	3.5	23	69	13	81	11	10	53	24	1.67
9288658--9288748	44	2.1	44	95	0	164	14	12	48	25	1.78
9290593--9290703	27	4.1	26	81	9	116	21	24	20	33	1.97
9290593--9290703	54	2.1	54	84	6	145	21	24	20	33	1.97
9300273--9300324	26	2.0	25	82	14	61	30	9	1	57	1.42
9301006--9301061	21	2.7	21	80	0	67	35	16	30	17	1.92
9300968--9301122	42	3.7	41	75	5	114	41	14	25	18	1.88
9309690--9309761	36	2.0	36	97	0	135	34	16	23	25	1.95
9312941--9313022	35	2.3	35	83	4	103	35	21	19	23	1.96
9318203--9318353	22	6.9	22	70	7	110	45	13	22	19	1.85
9318187--9318319	43	3.1	43	77	1	131	42	16	22	18	1.88
9319511--9319555	23	2.0	23	82	8	56	31	17	8	42	1.80
9322344--9322628	81	3.5	79	77	9	279	34	15	29	21	1.94
9322344--9322650	41	7.5	41	80	3	298	33	15	28	21	1.94
9331460--9331500	20	2.0	20	100	0	82	39	14	4	41	1.67
9331635--9331712	24	3.3	24	76	3	77	42	16	19	21	1.89
9336564--9336895	165	2.0	165	91	1	531	31	15	13	40	1.85
9337030--9337442	204	2.0	207	90	2	645	39	17	10	31	1.84
9340744--9340801	29	2.0	29	89	0	89	25	10	29	34	1.89
9342469--9342493	2	12.5	2	100	0	50	48	0	0	52	1.00
9347127--9347184	29	2.0	29	96	0	107	34	25	10	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9348745--9348807	23	2.8	24	71	14	69	46	15	14	23	1.83
9348745--9348871	45	2.8	45	83	1	157	42	15	16	25	1.87
9351795--9351850	26	2.2	26	83	6	69	33	0	5	60	1.19
9354588--9354987	200	2.0	200	95	0	712	30	17	16	35	1.92
9367543--9367886	175	2.0	175	91	1	555	28	15	26	29	1.96
9367718--9368717	131	7.6	131	95	0	1531	28	14	25	31	1.95
9367544--9367931	175	2.2	175	87	1	537	29	15	25	29	1.96
9367980--9369023	175	6.0	173	76	12	940	28	14	26	30	1.95
9368242--9369219	306	3.2	305	82	7	1286	28	14	25	30	1.95
9368854--9369198	131	2.6	131	86	1	512	29	14	24	30	1.95
9369102--9369286	44	4.4	40	77	11	165	32	14	24	28	1.94
9370371--9370442	35	2.1	35	100	0	144	15	20	8	55	1.66
9374402--9374453	3	17.7	3	77	18	56	67	0	32	0	0.91
9374400--9374455	9	6.5	8	80	15	67	69	0	30	0	0.89
9374399--9374456	27	2.2	27	90	3	100	70	0	29	0	0.87
9374400--9374455	18	3.2	17	87	9	78	69	0	30	0	0.89
9376054--9376097	22	2.0	22	95	0	79	40	0	15	43	1.47
9385800--9385848	25	2.0	25	87	0	71	28	18	22	30	1.97
9394540--9394743	79	2.6	80	82	6	236	18	28	21	31	1.96
9394540--9394743	40	5.1	40	82	3	225	18	28	21	31	1.96
9395858--9396054	40	5.0	40	81	3	211	17	28	19	34	1.95
9395856--9396054	79	2.5	79	85	4	240	17	28	20	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9398862--9398922	30	2.0	30	83	0	77	32	22	4	39	1.76
9403316--9403399	31	2.7	31	94	1	143	28	27	16	27	1.97
9403386--9403433	23	2.1	23	100	0	96	25	25	29	20	1.99
9403446--9404419	42	23.2	42	99	0	1923	35	19	14	31	1.91
9404567--9404636	25	2.8	26	80	4	81	27	22	24	25	2.00
9405563--9405644	27	3.0	26	79	13	85	32	9	15	41	1.80
9405626--9405749	27	4.6	27	84	6	144	27	7	21	43	1.79
9405627--9405782	81	1.9	80	83	5	197	28	10	19	41	1.85
9405785--9405899	54	2.1	54	91	0	194	37	6	26	29	1.82
9405784--9405883	27	3.7	27	90	5	166	37	5	26	32	1.78
9405785--9405919	54	2.5	54	87	0	180	36	7	24	31	1.83
9422807--9422833	14	1.9	14	100	0	54	51	7	14	25	1.68
9425469--9425499	13	2.4	13	94	0	53	16	3	12	67	1.35
9431942--9431973	9	3.4	9	91	8	55	21	0	9	68	1.17
9434115--9434146	9	3.6	9	95	0	55	28	6	0	65	1.16
9438720--9438816	46	2.1	46	86	3	133	40	15	22	21	1.91
9441514--9441573	30	2.0	30	96	0	111	30	28	3	38	1.73
9443120--9443191	36	2.0	36	100	0	144	30	16	19	33	1.94
9443357--9443394	18	2.1	18	95	0	67	23	26	10	39	1.87
9445090--9445129	18	2.2	18	100	0	80	35	20	20	25	1.96
9445766--9445850	42	2.0	42	93	0	143	44	20	20	15	1.86
9445828--9446220	125	3.1	124	87	2	538	29	17	17	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9446289--9446407	34	3.5	34	83	12	154	48	13	1	36	1.52
9446415--9446485	36	2.0	36	81	10	83	43	22	1	32	1.62
9446503--9446542	15	2.7	15	92	0	62	55	35	0	10	1.34
9446445--9446523	42	1.9	42	89	2	124	45	26	1	26	1.61
9448763--9448798	17	2.1	17	94	0	63	44	25	8	22	1.80
9454510--9454534	13	1.9	13	100	0	50	32	0	0	68	0.90
9468444--9469790	112	11.9	112	95	2	2306	32	1	14	51	1.52
9469848--9469879	15	2.1	16	94	5	57	37	0	6	56	1.25
9471889--9472047	33	4.8	33	77	3	131	18	44	11	26	1.83
9473047--9473131	42	2.0	42	95	0	152	27	18	21	32	1.97
9475676--9475711	18	2.0	18	88	0	54	25	25	22	27	2.00
9489910--9489950	21	2.1	19	86	9	55	46	0	2	51	1.14
9491171--9491297	62	2.0	62	84	0	164	29	22	22	25	1.99
9496870--9496905	9	4.0	9	85	0	54	41	19	2	36	1.66
9496871--9496905	18	1.9	18	94	0	61	40	20	2	37	1.67
9506684--9506730	17	2.9	16	81	6	58	4	8	6	80	1.00
9507542--9507611	30	2.2	31	80	10	79	30	2	2	64	1.22
9507609--9507682	26	2.8	27	81	4	96	28	2	8	60	1.39
9507615--9507695	27	3.0	27	83	3	101	29	1	7	61	1.31
9513909--9513937	5	5.8	5	100	0	58	0	17	0	82	0.66
9514640--9514698	30	1.9	31	86	3	84	52	11	20	15	1.73
9519458--9519544	44	2.0	43	90	0	129	41	10	19	27	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9521184--9521215	13	2.6	12	90	9	55	81	6	12	0	0.87
9521179--9521213	13	2.6	14	86	9	54	80	8	11	0	0.92
9523052--9523087	18	2.0	18	94	0	63	38	30	16	13	1.88
9523450--9523497	20	2.4	20	85	0	60	10	4	4	81	0.97
9523457--9523500	14	3.2	13	87	6	52	9	6	2	81	0.94
9530982--9531015	14	2.4	15	85	14	54	29	11	5	52	1.61
9531711--9531816	51	2.1	51	94	0	185	25	21	8	44	1.80
9532222--9532257	18	1.9	18	88	5	54	44	0	0	55	0.99
9532244--9532273	15	1.9	16	93	6	53	56	3	0	40	1.16
9539532--9539696	46	3.5	47	75	4	147	23	26	19	30	1.98
9544988--9545035	24	2.0	24	100	0	96	29	29	16	25	1.97
9547402--9547566	46	3.5	47	75	4	147	23	26	19	30	1.98
9557689--9557990	27	11.2	27	78	7	249	39	10	21	28	1.86
9557694--9557920	81	2.8	80	84	4	276	41	8	19	29	1.81
9559952--9560175	41	5.5	40	83	3	205	21	28	15	34	1.94
9559952--9560173	82	2.7	81	82	6	259	22	27	15	34	1.94
9560086--9560156	21	3.4	21	67	18	58	23	32	15	28	1.95
9560107--9560175	20	3.4	20	69	11	59	18	33	14	33	1.91
9567964--9568014	18	2.8	17	78	21	59	52	5	0	41	1.25
9567964--9568035	36	2.0	36	83	5	92	52	6	0	40	1.28
9568764--9568798	3	11.7	3	100	0	70	0	31	0	68	0.90
9581660--9581736	29	2.7	29	80	13	72	31	1	3	63	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9587902--9587957	3	18.7	3	100	0	112	33	32	0	33	1.58
9588161--9588206	3	15.0	3	81	4	56	28	4	4	63	1.33
9588161--9588206	15	3.2	15	87	6	69	28	4	4	63	1.33
9593946--9594092	53	2.8	53	90	0	231	23	17	8	51	1.71
9599619--9599663	19	2.4	19	85	7	56	28	22	8	40	1.84
9606905--9606988	42	2.0	42	95	0	150	38	15	32	14	1.87
9608273--9608801	177	3.0	174	85	3	659	28	17	26	28	1.97
9610917--9610955	15	2.5	15	87	4	51	33	2	0	64	1.08
9612107--9612254	46	3.2	46	87	0	206	34	14	25	25	1.94
9612685--9613051	143	2.6	143	86	2	488	29	18	23	28	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