genome.fa.s17.2.7.7.80.10.50.1000.23.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  23  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)
6569928--6569952	12	2.1	12	100	0	50	16	24	36	24	1.94
6571080--6571111	10	3.3	10	95	4	57	81	0	0	18	0.70
6571092--6571122	16	1.9	16	93	0	53	74	0	0	25	0.82
6571080--6571111	9	3.4	9	91	8	55	81	0	0	18	0.70
6582543--6582611	24	2.9	24	86	0	102	27	11	18	42	1.85
6594602--6594641	14	3.0	14	82	10	57	0	25	0	75	0.81
6594602--6594654	27	2.0	26	88	3	79	0	24	1	73	0.93
6594857--6594896	20	1.9	22	90	10	66	52	0	0	47	1.00
6594857--6594915	28	2.0	30	81	12	70	55	1	0	42	1.09
6600676--6600892	50	4.3	50	86	0	308	26	21	29	21	1.99
6600681--6600954	50	5.5	49	76	7	171	28	20	27	24	1.99
6606593--6606626	17	2.0	17	100	0	68	47	5	17	29	1.71
6620304--6620464	85	1.9	85	80	0	187	29	15	17	37	1.91
6622498--6622589	19	4.8	19	87	0	139	39	15	9	35	1.80
6622473--6622589	38	3.0	38	88	5	162	39	15	8	36	1.78
6625152--6625215	27	2.4	27	81	0	74	42	23	18	15	1.89
6626825--6627047	74	3.2	68	77	11	206	44	8	6	40	1.60
6626887--6627029	64	2.2	65	85	4	193	46	9	6	37	1.61
6630200--6630243	15	2.9	15	75	3	52	54	2	2	40	1.25
6632853--6632976	42	2.9	41	80	9	117	30	29	16	22	1.96
6632823--6632975	43	3.5	44	77	4	150	30	27	16	26	1.97
6637168--6637202	16	2.1	17	89	5	54	45	0	11	42	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6637976--6638048	38	1.9	38	81	10	87	54	2	2	39	1.29
6644105--6644225	59	2.0	59	87	1	170	43	17	17	21	1.88
6646750--6646805	11	5.2	11	76	2	51	12	3	16	67	1.35
6650761--6650822	22	2.9	22	76	11	67	25	1	19	53	1.54
6655791--6655841	24	2.1	24	82	17	61	49	3	7	39	1.51
6655804--6655872	31	2.2	31	85	10	88	52	2	7	37	1.44
6657220--6657257	19	2.1	19	85	14	53	44	0	2	52	1.14
6664040--6664091	25	2.1	25	86	13	72	21	11	13	53	1.70
6669146--6669240	20	4.8	20	82	10	106	34	7	16	41	1.77
6671104--6671156	13	4.1	13	85	0	79	35	28	7	28	1.84
6676924--6676960	3	12.3	3	100	0	74	67	0	32	0	0.91
6687155--6687187	17	1.9	17	93	0	57	60	24	6	9	1.49
6687153--6687219	25	2.7	25	86	6	84	58	28	4	8	1.48
6687388--6687425	20	1.9	20	84	10	51	50	15	2	31	1.58
6689592--6689831	50	4.7	50	81	4	241	27	22	28	22	1.99
6695722--6696064	180	1.9	177	91	2	553	23	14	18	44	1.86
6698641--6698687	6	7.8	6	86	9	53	29	17	23	29	1.97
6704646--6704679	17	2.0	17	88	0	50	14	50	17	17	1.79
6704970--6704995	6	4.3	6	100	0	52	84	0	15	0	0.62
6709541--6709586	21	2.2	21	92	0	74	36	21	17	23	1.94
6712574--6712637	23	2.6	25	78	9	78	18	15	28	37	1.92
6723064--6723171	25	4.5	25	72	8	98	36	21	21	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6723264--6723390	64	2.0	64	84	0	164	33	23	18	23	1.97
6725577--6725896	170	1.9	170	93	1	552	29	15	15	39	1.88
6725950--6726207	130	2.0	130	92	0	426	31	10	20	37	1.87
6736675--6736699	2	12.5	2	100	0	50	48	52	0	0	1.00
6736810--6736853	11	3.9	11	79	5	52	70	4	25	0	1.06
6738674--6738752	40	2.0	40	84	0	104	16	31	32	18	1.94
6738800--6738842	14	2.9	15	75	6	52	16	0	37	46	1.47
6741768--6741892	59	2.1	59	100	0	250	40	9	9	40	1.71
6741960--6742097	22	6.4	22	83	10	169	23	0	28	47	1.57
6741960--6742097	43	3.2	43	83	7	172	23	0	28	47	1.57
6742098--6742298	101	2.0	102	93	2	343	35	1	14	47	1.54
6742227--6742269	12	3.3	12	78	15	50	53	0	0	46	1.00
6742230--6742269	7	5.9	7	83	16	57	52	0	0	47	1.00
6744587--6744692	52	2.0	52	83	7	135	52	2	21	22	1.60
6744679--6744743	11	5.8	11	89	8	87	53	4	21	20	1.63
6744660--6744735	33	2.3	32	80	10	91	50	3	25	21	1.66
6747862--6747907	15	3.0	15	83	3	56	47	17	8	26	1.76
6750779--6750851	3	26.0	3	74	13	57	65	1	30	2	1.15
6750795--6750851	25	2.3	25	87	6	80	63	0	33	3	1.12
6750795--6750846	11	4.7	11	79	9	61	63	0	34	1	1.06
6752140--6752196	20	2.8	20	84	5	62	57	28	0	14	1.37
6752281--6752333	28	1.9	28	84	3	72	56	20	1	20	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6752384--6752410	14	1.9	14	100	0	54	44	29	0	25	1.54
6752403--6752476	20	3.5	20	80	8	67	56	20	0	22	1.42
6752582--6752633	21	2.5	20	79	11	52	57	25	1	15	1.48
6752718--6752859	21	6.9	21	64	23	61	48	26	0	23	1.56
6752806--6752902	7	13.9	7	70	4	61	50	29	0	19	1.48
6752806--6752874	21	3.3	20	84	8	75	49	28	0	21	1.50
6752761--6752880	21	5.5	21	67	14	55	52	28	0	19	1.46
6752849--6752914	28	2.4	28	87	10	107	57	30	0	12	1.35
6752855--6752908	14	3.9	14	95	0	99	55	31	0	12	1.38
6753376--6753418	22	1.9	23	85	4	61	60	20	0	18	1.36
6753547--6753590	23	1.9	23	90	0	70	52	18	0	29	1.46
6754021--6754112	43	2.1	43	82	4	114	36	28	13	21	1.91
6757070--6757122	27	2.0	27	81	7	63	54	20	3	20	1.60
6757162--6757250	40	2.2	40	87	0	124	53	14	1	30	1.48
6757162--6757227	20	3.3	20	70	8	62	51	15	0	33	1.43
6757260--6757461	20	10.3	20	72	10	114	52	22	0	23	1.53
6757404--6757428	13	1.9	13	100	0	50	56	24	0	20	1.43
6757528--6757607	20	3.9	22	72	18	66	56	18	0	25	1.42
6757521--6757560	14	2.9	14	88	0	62	55	17	0	27	1.43
6757618--6757706	7	12.4	7	71	21	51	53	26	0	19	1.45
6757617--6757658	20	2.0	22	90	9	70	54	30	0	14	1.40
6757809--6757918	40	2.8	40	79	2	98	48	20	1	30	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6757865--6757919	18	2.9	18	76	10	56	47	20	1	30	1.60
6757914--6757974	21	2.9	21	74	13	63	45	26	0	27	1.54
6757914--6757951	7	5.3	7	87	6	58	44	28	0	26	1.54
6757977--6758020	20	2.1	21	84	12	56	54	20	2	22	1.56
6757985--6758041	14	4.2	14	77	4	55	56	17	3	22	1.56
6758077--6758155	7	11.7	7	78	8	74	50	34	0	15	1.44
6758071--6758155	27	3.1	27	86	6	102	50	31	0	17	1.46
6758158--6758188	13	2.3	14	94	5	55	54	16	0	29	1.42
6758086--6758261	20	8.9	20	72	9	94	52	25	0	21	1.50
6758203--6758228	13	2.0	13	100	0	52	53	23	0	23	1.46
6758325--6758383	20	2.9	20	76	2	64	55	22	0	22	1.43
6758576--6758641	20	3.3	20	66	16	55	51	13	0	34	1.41
6758563--6758632	33	2.1	35	83	5	90	50	17	0	32	1.46
6758570--6758659	40	2.3	39	90	1	135	53	14	1	31	1.48
6758673--6758716	20	2.2	20	91	0	70	54	27	2	15	1.53
6758680--6758854	20	8.9	20	68	17	91	50	24	1	22	1.58
6758758--6758853	40	2.4	39	81	10	113	50	22	2	25	1.60
6758824--6758848	13	1.9	13	100	0	50	56	24	0	20	1.43
6758924--6759054	21	6.4	20	70	14	63	54	22	0	22	1.50
6759106--6759158	27	2.0	27	81	7	63	54	20	3	20	1.60
6759144--6759306	68	2.4	67	82	10	179	50	30	0	19	1.52
6759145--6759476	7	47.4	7	67	13	94	50	29	0	19	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6759212--6759337	54	2.3	53	84	6	148	53	27	0	18	1.50
6758110--6759391	620	2.1	614	85	7	1727	51	24	1	22	1.57
6759372--6759414	20	2.1	21	86	4	61	58	32	0	9	1.30
6759392--6759476	34	2.5	35	82	5	111	51	28	0	20	1.47
6759350--6759489	34	4.1	34	74	8	99	53	29	0	17	1.44
6759675--6759719	21	2.2	20	84	4	54	55	31	0	13	1.38
6759735--6759815	27	3.0	27	74	13	76	54	18	0	27	1.44
6759742--6759789	20	2.4	19	80	19	53	54	14	0	31	1.41
6759920--6759993	7	10.4	7	74	8	53	48	25	0	25	1.51
6759923--6759967	15	3.0	15	84	9	56	44	26	0	28	1.55

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