genome.fa.s17.2.7.7.80.10.50.1000.128.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  128  of  185  ( 22116 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)
39944786--39945174	51	7.7	50	74	4	350	29	14	26	30	1.95
39944782--39945165	102	3.8	102	90	0	572	29	15	26	29	1.96
39946714--39946762	14	3.4	14	74	2	53	14	0	36	48	1.44
39946708--39946763	28	2.0	29	85	3	78	14	0	35	50	1.43
39948224--39948303	31	2.6	31	95	0	142	18	15	21	45	1.86
39951755--39951862	43	2.5	43	93	0	180	22	15	32	29	1.95
39959019--39959083	9	7.1	9	77	13	53	69	0	3	27	1.03
39959027--39959091	9	6.8	10	81	12	57	67	0	3	29	1.05
39959576--39959678	9	12.1	8	70	16	57	32	0	0	66	0.98
39959578--39959660	10	9.1	10	75	18	67	32	0	1	66	1.00
39959576--39959683	18	6.2	18	73	18	86	32	0	0	65	1.05
39959572--39959670	37	2.9	35	82	13	116	34	0	1	64	1.00
39959594--39959685	25	3.6	25	74	10	80	33	1	1	64	1.08
39962280--39962340	26	2.3	26	75	10	70	39	3	3	54	1.33
39963157--39963290	40	3.3	40	82	2	153	32	20	23	23	1.98
39963175--39963308	40	3.4	40	81	4	157	35	20	21	21	1.96
39963344--39963577	41	5.7	41	90	0	324	18	23	29	29	1.97
39964849--39964887	13	2.9	14	84	3	53	20	0	46	33	1.51
39964927--39965081	82	1.9	82	86	5	224	27	1	26	44	1.62
39965928--39966269	147	2.3	146	86	2	481	39	14	12	33	1.84
39969942--39970007	34	1.9	34	84	9	89	43	1	1	53	1.19
39970085--39970128	22	1.9	22	86	9	61	54	6	0	38	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39970160--39970407	43	5.7	43	84	3	311	21	16	35	27	1.94
39970160--39970407	87	2.9	85	83	5	302	21	16	35	27	1.94
39970160--39970406	130	1.9	130	86	5	356	21	16	34	27	1.95
39971311--39971352	11	3.9	11	78	6	50	16	0	7	76	1.00
39971312--39971379	21	3.2	21	84	10	77	22	0	4	73	1.01
39972143--39972173	15	2.0	16	93	6	55	41	0	6	51	1.27
39972292--39972334	10	4.1	10	82	8	50	74	2	11	11	1.17
39975915--39975939	13	1.9	13	100	0	50	52	16	0	32	1.44
39976512--39976569	30	1.9	30	100	0	116	20	13	31	34	1.92
39982765--39982789	13	1.9	13	100	0	50	0	0	28	72	0.86
39996601--39996837	118	2.1	113	93	4	402	40	14	16	28	1.88
40002647--40002676	13	2.4	13	94	5	53	50	0	0	50	1.00
40003656--40003713	9	6.4	9	91	0	89	24	10	25	39	1.87
40003656--40003713	18	3.2	18	95	0	98	24	10	25	39	1.87
40003656--40003713	27	2.1	27	96	0	107	24	10	25	39	1.87
40007051--40007195	51	2.8	51	82	8	195	31	30	16	21	1.95
40014551--40014601	14	3.8	14	74	10	52	50	9	1	37	1.47
40014551--40014601	26	2.0	26	96	0	93	50	9	1	37	1.47
40014724--40014770	23	2.0	23	100	0	94	34	21	12	31	1.91
40015831--40015950	56	2.1	56	82	0	150	25	29	24	21	1.99
40016936--40017012	25	3.1	25	81	3	93	28	19	29	22	1.98
40016965--40017029	25	2.6	25	82	0	76	33	20	24	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40023317--40023436	55	2.2	56	86	1	161	26	30	23	20	1.98
40024412--40024478	25	2.7	26	76	4	66	29	16	32	20	1.95
40028080--40028128	17	2.9	17	78	3	55	16	0	28	55	1.42
40042138--40042250	43	2.6	43	83	2	138	30	24	17	26	1.97
40048707--40048748	16	2.7	15	79	20	50	47	2	0	50	1.14
40062502--40062545	4	11.2	4	95	4	81	47	27	0	25	1.52
40064479--40064522	23	2.0	20	87	12	61	40	0	11	47	1.39
40066594--40066632	20	2.0	20	90	10	62	15	23	5	56	1.59
40066923--40067029	50	2.1	50	84	0	142	21	31	20	26	1.98
40069076--40069154	26	3.1	26	68	17	67	48	1	3	46	1.28
40069044--40069161	63	2.0	60	85	8	159	50	3	3	43	1.35
40069156--40069238	39	2.2	39	97	2	159	48	7	2	42	1.44
40069169--40069297	63	2.0	63	100	0	258	48	6	1	42	1.39
40069208--40069263	24	2.3	24	96	3	103	50	5	0	44	1.25
40069231--40069338	39	2.8	39	86	9	152	50	5	2	41	1.40
40070060--40070153	49	1.9	49	95	0	170	37	23	6	32	1.80
40072253--40072294	21	2.0	20	86	4	57	28	9	16	45	1.79
40072985--40073331	174	2.0	173	97	0	658	33	20	15	30	1.94
40074049--40074136	25	3.5	25	79	0	104	36	23	18	21	1.95
40077662--40077686	13	1.9	13	100	0	50	32	4	8	56	1.47
40084030--40084158	22	5.9	22	79	0	132	39	17	27	16	1.90
40084030--40084153	66	1.9	66	89	0	194	41	16	26	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40085128--40085159	11	3.1	11	82	17	50	43	9	0	46	1.35
40093880--40093958	39	2.0	39	92	0	131	41	13	18	25	1.88
40096738--40096773	18	2.0	18	88	0	54	30	2	19	47	1.64
40098845--40098889	22	2.1	21	91	4	72	11	17	28	42	1.84
40100726--40100797	21	3.4	19	73	17	54	66	9	2	20	1.33
40100742--40100800	21	2.8	20	80	10	64	71	8	1	18	1.20
40103836--40103887	7	7.4	7	84	0	59	36	48	0	15	1.45
40103828--40103890	21	3.0	21	76	2	63	36	46	0	17	1.49
40113525--40113571	23	2.0	23	83	0	58	23	14	4	57	1.55
40120378--40120463	20	4.2	20	80	1	91	36	20	30	12	1.90
40123930--40123958	14	2.1	14	100	0	58	44	13	13	27	1.82
40141228--40141273	25	1.9	23	83	16	58	52	8	8	30	1.62
40145267--40145315	18	2.7	18	80	0	62	42	24	8	24	1.81
40152230--40152282	26	2.0	26	100	0	106	39	7	33	18	1.79
40155067--40155091	11	2.3	11	100	0	50	48	0	36	16	1.46
40165286--40165333	22	2.2	22	85	7	62	27	2	27	43	1.66
40165215--40165343	54	2.4	52	81	2	150	29	1	22	46	1.61
40195476--40195519	22	2.0	22	81	0	52	56	2	0	40	1.11
40199913--40199973	26	2.4	25	81	5	68	47	14	6	31	1.70
40201292--40201342	12	3.9	13	75	15	52	31	1	0	66	1.03
40201799--40201865	31	2.2	31	91	0	116	16	17	5	59	1.56
40202785--40202892	22	5.0	22	70	11	80	20	13	19	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40210038--40210114	19	3.7	21	73	13	59	41	14	5	38	1.68
40210076--40210184	19	5.7	19	86	0	155	38	12	9	39	1.76
40210076--40210177	38	2.7	38	92	0	177	39	11	8	40	1.73
40210511--40211271	132	5.8	132	92	0	1272	29	23	18	29	1.97
40218119--40218214	19	4.7	21	74	14	65	40	14	6	38	1.71
40218119--40218176	22	2.6	22	81	7	64	41	17	5	36	1.72
40218155--40218227	19	3.8	19	88	0	119	36	13	9	39	1.78
40219726--40219774	3	16.3	3	95	0	89	0	30	0	69	0.89
40221283--40221368	22	3.8	22	83	6	93	31	16	16	36	1.91
40231996--40232192	105	1.9	108	88	3	301	28	18	18	33	1.95
40237839--40238540	86	8.1	87	86	2	797	28	23	23	24	2.00
40237839--40238540	173	4.0	175	85	3	814	28	23	23	24	2.00
40238114--40238249	43	3.2	42	63	22	102	25	19	26	27	1.99
40237839--40238537	259	2.7	261	84	2	852	28	23	23	24	2.00
40238549--40238916	132	2.8	131	84	4	472	29	17	24	28	1.98
40238596--40238936	132	2.6	133	88	2	474	31	16	24	28	1.96
40241189--40241386	105	1.9	106	88	4	301	29	19	19	32	1.96
40251667--40251706	18	2.2	18	90	0	62	40	15	12	32	1.84
40255310--40255420	43	2.6	42	84	2	143	28	27	18	25	1.98
40259211--40259256	21	2.2	21	84	0	56	30	34	0	34	1.58
40259137--40259383	130	1.9	132	80	5	293	40	28	1	29	1.66
40259343--40259383	21	2.0	21	85	0	55	26	48	0	24	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40259832--40259984	41	3.7	41	78	2	164	28	27	20	23	1.99
40260022--40260151	40	3.3	40	82	5	140	19	21	21	37	1.94
40262361--40262432	20	3.5	20	76	9	65	15	15	18	51	1.77
40264991--40265046	28	2.0	28	100	0	112	42	10	10	35	1.74
40265573--40265620	14	3.3	14	77	11	51	58	4	0	37	1.18
40265575--40265621	16	3.1	15	76	8	51	59	4	0	36	1.17
40266233--40266262	4	7.2	4	96	3	51	50	0	0	50	1.00
40272951--40272975	12	2.1	12	100	0	50	44	0	0	56	0.99
40277109--40277186	6	13.0	6	97	0	147	16	34	0	48	1.47
40277579--40277609	12	2.6	12	89	0	53	19	22	0	58	1.40

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