genome.fa.s16.2.7.7.80.10.50.1000.25.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  25  of  175  ( 20966 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)
6709103--6709359	42	6.1	42	79	9	200	29	19	25	26	1.98
6709173--6709359	83	2.2	82	82	7	207	28	18	24	27	1.98
6711061--6711098	15	2.5	15	91	0	58	34	7	0	57	1.28
6714475--6714515	19	2.2	18	86	4	55	34	17	0	48	1.47
6714952--6714982	10	3.2	10	90	9	55	9	19	0	70	1.14
6721720--6721752	14	2.3	15	85	15	52	57	0	0	42	0.98
6733781--6733811	13	2.4	13	100	0	62	25	6	0	67	1.14
6734920--6734960	12	3.6	12	83	9	50	56	0	2	41	1.13
6734920--6734978	22	2.7	23	84	5	68	57	1	1	38	1.19
6739721--6739861	42	3.3	44	76	5	153	27	17	25	29	1.98
6742831--6742870	17	2.4	17	86	0	53	52	2	5	40	1.37
6746216--6746374	42	3.8	40	76	9	129	30	27	17	23	1.97
6749958--6750024	34	1.9	35	87	3	100	31	8	14	44	1.76
6759046--6759076	16	1.9	16	93	0	53	45	6	6	41	1.55
6760672--6760768	31	3.1	31	88	2	140	36	14	8	41	1.76
6761573--6761618	24	1.9	24	86	0	65	45	0	2	52	1.13
6764812--6765247	18	24.6	18	69	20	124	44	10	11	33	1.74
6764818--6764883	16	3.9	16	78	13	53	48	10	13	27	1.75
6764812--6765235	17	24.0	17	68	20	123	44	9	11	33	1.74
6764864--6764934	20	3.6	20	71	9	56	42	11	11	35	1.77
6765003--6765084	22	4.1	20	83	13	89	43	8	7	40	1.63
6765003--6765084	21	4.1	20	83	11	98	43	8	7	40	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6765201--6765256	18	3.1	19	76	7	62	41	14	10	33	1.80
6765251--6765301	18	2.9	17	77	8	57	47	7	9	35	1.66
6765798--6765848	7	6.9	7	91	8	75	0	17	0	82	0.67
6765798--6765848	15	3.4	14	89	10	75	0	17	0	82	0.67
6765798--6765852	22	2.4	22	90	6	83	0	18	0	81	0.68
6765994--6766018	12	2.1	12	100	0	50	0	8	8	84	0.79
6766150--6766195	3	15.0	3	82	13	58	0	36	0	63	0.95
6766147--6766195	13	3.9	13	75	24	52	0	36	0	63	0.95
6766164--6766192	10	2.9	10	100	0	58	0	37	0	62	0.96
6766251--6766300	10	5.2	10	80	7	59	0	30	0	70	0.88
6766255--6766297	19	2.3	19	88	11	63	0	30	0	69	0.88
6766545--6766661	30	3.9	29	77	11	94	44	3	21	30	1.69
6766560--6766661	30	3.4	30	83	2	125	44	3	21	30	1.70
6766933--6767182	53	4.7	54	89	6	368	35	18	15	30	1.92
6767196--6767228	13	2.4	14	95	5	59	69	9	9	12	1.36
6767189--6767236	14	3.5	14	85	5	62	62	8	10	18	1.52
6767312--6768620	72	18.1	72	94	1	2210	33	18	17	30	1.94
6767308--6769248	217	8.7	216	83	8	2353	33	18	16	30	1.94
6767312--6768620	145	9.1	145	96	0	2263	33	18	17	30	1.94
6768691--6769248	72	7.7	72	93	2	904	33	18	16	31	1.94
6768691--6769248	143	3.9	144	93	2	906	33	18	16	31	1.94
6781143--6781189	21	2.3	19	80	20	51	34	6	8	51	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6781168--6781578	17	23.3	17	70	16	144	44	9	11	33	1.74
6781254--6781337	36	2.3	37	77	6	91	39	11	8	40	1.72
6781338--6781612	17	15.4	17	73	9	156	45	10	12	31	1.75
6781358--6781439	22	4.1	20	83	13	89	43	8	7	40	1.63
6781358--6781439	21	4.1	20	83	11	98	43	8	7	40	1.63
6781557--6781612	18	3.1	19	76	7	62	41	14	10	33	1.80
6781607--6781657	18	2.9	17	77	8	57	47	7	9	35	1.66
6782153--6782210	7	7.9	7	92	7	89	0	17	0	82	0.66
6782151--6782214	22	2.8	22	90	4	92	0	18	0	81	0.70
6782153--6782210	15	3.9	14	91	8	89	0	17	0	82	0.66
6782357--6782381	12	2.1	12	100	0	50	0	8	8	84	0.79
6782359--6782423	18	3.5	19	70	8	62	1	7	12	78	1.02
6782515--6782560	3	15.0	3	82	13	58	0	36	0	63	0.95
6782529--6782557	10	2.9	10	100	0	58	0	37	0	62	0.96
6782515--6782560	13	3.7	13	81	18	62	0	36	0	63	0.95
6782616--6782665	10	5.2	10	80	7	59	0	30	0	70	0.88
6782620--6782662	19	2.3	19	88	11	63	0	30	0	69	0.88
6782909--6783025	30	3.9	29	77	11	94	44	3	21	30	1.69
6782924--6783025	30	3.4	30	83	2	125	44	3	21	30	1.70
6784365--6784405	16	2.5	17	88	4	57	39	34	2	24	1.69
6785306--6785339	16	2.1	16	94	0	59	41	0	8	50	1.34
6788398--6788455	24	2.4	24	88	0	89	43	0	25	31	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6788494--6788555	30	2.1	29	93	3	106	37	6	8	48	1.59
6788536--6788596	17	3.4	17	68	12	50	32	1	13	52	1.50
6788526--6788602	37	2.1	37	95	0	136	33	3	14	48	1.62
6788608--6788710	9	11.2	9	89	4	161	21	9	33	34	1.86
6788816--6788881	29	2.3	27	78	16	71	28	12	27	31	1.92
6788871--6788895	12	2.1	12	100	0	50	16	24	36	24	1.94
6789939--6789998	22	2.7	23	86	5	86	8	36	10	45	1.68
6793019--6793063	15	2.9	16	80	9	58	44	0	2	53	1.13
6792977--6793659	120	5.7	120	95	1	1190	42	1	5	50	1.35
6793132--6793173	15	2.9	15	82	10	52	47	0	0	52	1.00
6793261--6793303	15	2.8	16	79	10	54	44	0	2	53	1.13
6793381--6793423	15	2.8	16	79	10	54	44	0	2	53	1.13
6793501--6793543	15	2.8	16	79	10	54	44	0	2	53	1.13
6793621--6793662	15	2.7	16	82	14	52	45	0	2	52	1.13
6793612--6793653	15	2.9	15	82	10	52	47	0	0	52	1.00
6793871--6793929	16	3.7	16	97	0	109	20	33	5	40	1.74
6801247--6801320	3	25.7	3	71	13	57	63	2	4	29	1.26
6802865--6802962	44	2.2	45	88	1	144	26	26	15	31	1.96
6803065--6803240	44	4.0	44	67	8	133	27	22	19	30	1.98
6802939--6804231	132	9.8	132	88	1	1750	28	23	18	28	1.98
6808412--6808459	19	2.6	18	74	9	51	47	6	16	29	1.71
6810562--6810619	28	2.2	27	78	9	66	65	3	3	27	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6813550--6813580	14	2.2	14	100	0	62	25	6	29	38	1.81
6815836--6815954	60	2.0	61	98	1	231	44	16	1	36	1.58
6816543--6816586	21	2.0	22	86	4	63	0	25	6	68	1.14
6818263--6818312	26	1.9	26	95	0	91	14	24	32	30	1.94
6818081--6818345	104	2.6	104	88	3	401	20	20	29	29	1.97
6831653--6831689	18	2.0	19	89	5	58	35	0	5	59	1.20
6834442--6834547	44	2.4	44	87	0	149	28	23	20	27	1.99
6834442--6834559	44	2.7	44	84	2	148	28	21	22	27	1.99
6834944--6834988	23	2.0	23	86	4	65	37	6	17	37	1.76
6836525--6836651	65	2.0	65	93	3	220	27	20	17	34	1.95
6836981--6837049	16	4.2	16	92	3	120	24	1	36	37	1.65
6836981--6837049	33	2.1	32	94	2	120	24	1	36	37	1.65
6837030--6837120	45	2.0	45	85	2	121	27	6	28	37	1.82
6837285--6837319	18	2.0	17	88	5	52	54	0	0	45	0.99
6837524--6837558	18	2.0	17	88	5	52	54	0	0	45	0.99
6837268--6837769	120	4.2	120	97	0	961	48	5	2	44	1.38
6838097--6838156	18	3.4	18	64	13	52	40	10	6	43	1.64
6839801--6839876	33	2.3	33	97	0	143	35	5	15	43	1.70
6839919--6840000	37	2.2	37	91	0	128	35	8	15	40	1.78
6858400--6858444	3	15.0	3	81	9	56	28	2	0	68	1.01
6858400--6858444	19	2.5	17	89	7	63	28	2	0	68	1.01
6860096--6860500	111	3.7	110	92	2	656	33	20	17	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6861022--6861057	3	12.0	3	100	0	72	66	0	0	33	0.92
6866861--6867265	111	3.7	109	90	2	620	33	20	16	29	1.95
6867786--6867821	3	12.0	3	100	0	72	66	0	0	33	0.92
6872629--6872735	56	1.9	55	92	1	178	41	11	8	39	1.71
6875812--6875850	20	2.0	20	85	10	53	10	15	53	20	1.70
6877271--6877325	21	2.6	21	85	5	58	38	27	1	32	1.67
6890086--6890153	33	2.1	33	100	0	136	38	27	2	30	1.72
6891622--6891682	28	2.2	28	82	5	70	27	3	0	68	1.05
6891616--6891674	19	3.0	20	83	9	70	25	6	0	67	1.15
6892482--6892535	15	3.5	15	75	12	56	68	0	1	29	1.00

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