genome.fa.s16.2.7.7.80.10.50.1000.104.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  104  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)
33170823--33171795	389	2.5	389	92	0	1613	30	21	24	24	1.99
33171771--33172187	213	1.9	214	91	2	676	27	20	23	28	1.99
33171782--33172155	44	8.8	42	68	15	171	27	21	23	28	1.99
33172123--33172234	44	2.6	44	82	10	124	30	21	19	28	1.98
33172547--33172610	19	3.3	19	89	8	101	39	9	14	37	1.78
33172548--33172623	21	3.7	21	92	3	120	40	10	11	36	1.76
33172615--33172659	21	2.0	23	83	8	58	37	4	13	44	1.64
33173066--33173103	15	2.6	15	83	4	51	26	0	2	71	1.00
33173068--33173118	12	4.0	12	82	12	50	29	0	1	68	1.00
33173082--33173119	12	2.8	13	88	11	51	34	0	0	65	0.93
33176137--33176170	16	2.1	16	88	0	50	20	14	20	44	1.87
33178387--33178434	24	2.0	24	84	8	62	31	20	6	41	1.77
33178571--33178624	24	2.2	24	83	0	63	46	22	18	12	1.83
33185775--33185825	23	2.2	23	92	0	84	27	9	21	41	1.84
33189291--33189648	51	7.3	50	82	8	436	27	17	25	29	1.98
33189314--33189661	97	3.6	93	85	8	407	28	16	25	29	1.97
33189311--33189661	46	7.3	46	77	10	353	28	17	25	29	1.97
33190362--33190410	21	2.3	21	82	6	64	6	10	4	79	1.03
33190358--33190397	21	2.0	21	90	9	66	10	12	5	72	1.26
33191458--33191505	18	2.5	19	76	6	53	20	10	12	56	1.65
33198443--33198488	15	3.1	15	73	17	51	58	8	4	28	1.47
33198730--33198761	5	6.4	5	96	0	55	21	18	0	59	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33199019--33199070	6	8.7	6	93	0	86	0	61	19	19	1.35
33203712--33203923	47	4.5	47	90	2	309	29	30	8	31	1.87
33209746--33209808	33	1.9	33	84	12	85	46	0	3	50	1.17
33209808--33209864	30	1.9	30	82	13	73	47	3	0	49	1.18
33214753--33214880	63	2.0	63	100	0	256	36	21	10	30	1.88
33216264--33216338	19	3.8	19	87	6	105	36	17	10	36	1.84
33216734--33216875	43	3.3	43	66	9	117	19	25	27	28	1.98
33216700--33218178	88	16.9	88	87	1	1709	22	24	25	27	2.00
33217457--33217771	44	7.2	43	63	11	136	25	26	22	25	2.00
33217603--33217748	45	3.3	45	66	11	120	26	25	17	30	1.98
33216760--33218178	527	2.7	527	90	0	2187	22	24	24	27	2.00
33217896--33218034	44	3.2	44	62	4	109	23	23	25	27	2.00
33225054--33225122	19	3.5	19	92	7	120	36	15	10	37	1.82
33225059--33225121	21	3.1	21	90	9	112	38	14	9	38	1.78
33225484--33226313	88	9.4	88	87	0	989	22	24	25	27	2.00
33225535--33225756	44	5.0	44	62	4	142	21	25	25	27	1.99
33225540--33225766	43	5.2	44	60	8	111	21	25	25	27	1.99
33225896--33226118	44	5.1	44	62	20	106	23	25	25	25	2.00
33227889--33227945	21	2.8	21	92	5	91	36	17	10	35	1.84
33231977--33232025	22	2.2	22	88	0	71	16	32	12	38	1.86
33234078--33234312	9	24.6	9	67	26	62	60	1	2	35	1.18
33234077--33234314	28	8.3	28	67	22	106	60	1	2	35	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33234156--33234208	10	5.3	10	80	15	56	64	3	0	32	1.12
33234205--33234266	26	2.4	27	76	15	69	61	0	3	35	1.12
33234254--33234312	11	5.8	10	70	18	50	64	0	1	33	1.04
33234151--33234322	96	1.8	94	81	9	215	61	1	2	35	1.17
33234605--33234652	21	2.4	19	78	18	53	31	0	6	62	1.20
33234618--33234660	21	2.0	22	90	4	70	37	0	6	55	1.27
33237173--33237222	20	2.5	20	83	6	66	30	10	14	46	1.77
33246378--33246431	21	2.5	21	85	8	65	55	7	3	33	1.45
33258598--33258634	11	3.3	11	92	3	56	48	27	8	16	1.74
33260899--33260929	15	2.1	15	93	0	53	38	12	35	12	1.82
33267155--33267190	18	1.9	18	88	5	54	58	2	0	38	1.13
33278313--33278376	31	2.2	30	86	10	89	64	4	1	29	1.23
33280082--33280184	25	4.2	25	72	13	88	30	21	28	20	1.98
33283176--33283208	16	1.9	18	88	11	52	33	0	42	24	1.55
33297085--33297114	12	2.5	12	100	0	60	16	23	10	50	1.75
33311839--33312048	92	2.3	88	82	9	255	36	18	10	35	1.85
33312412--33312486	37	2.0	37	84	5	98	37	4	1	57	1.26
33312615--33312774	86	1.9	85	85	3	223	33	12	17	36	1.87
33312606--33312792	86	2.2	85	78	7	198	32	11	19	37	1.87
33318108--33318148	21	2.0	21	85	0	55	29	21	26	21	1.99
33323087--33323141	27	1.9	29	89	10	87	9	1	43	45	1.46
33323200--33323431	96	2.4	97	86	1	333	40	2	16	40	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33323519--33323810	126	2.3	126	92	2	480	34	18	19	28	1.95
33327312--33327598	50	5.8	50	87	2	364	22	29	22	25	1.99
33335425--33335492	11	6.2	11	71	19	52	44	0	32	23	1.54
33335432--33335496	23	3.0	21	82	10	85	46	0	30	23	1.53
33336066--33336133	11	6.2	11	72	6	57	41	1	33	23	1.64
33336091--33336136	23	2.0	23	87	8	67	50	2	26	21	1.60
33335376--33336647	644	2.0	641	98	0	2460	35	12	21	30	1.91
33337673--33337783	37	3.0	37	75	0	123	45	18	5	30	1.72
33338805--33338939	29	4.6	29	80	0	135	48	8	17	25	1.75
33338805--33338945	58	2.4	59	84	1	176	49	8	16	25	1.73
33345231--33345350	57	2.1	58	87	6	181	45	7	20	26	1.77
33348077--33348421	41	8.4	41	84	3	428	27	17	22	33	1.96
33348079--33348424	82	4.2	82	87	3	475	27	17	22	32	1.96
33354647--33354723	38	2.0	38	97	0	145	28	1	40	29	1.65
33361810--33361897	44	2.0	44	90	0	140	37	11	4	46	1.60
33362793--33362863	36	2.0	36	88	0	106	28	22	15	33	1.95
33363034--33363077	19	2.3	18	84	7	52	25	2	2	70	1.10
33363092--33363134	20	2.0	22	86	8	63	58	0	2	39	1.11
33363339--33363392	23	2.4	22	75	9	54	27	1	18	51	1.56
33365368--33365393	6	4.3	6	100	0	52	84	0	0	15	0.62
33365849--33365919	21	3.4	21	74	3	81	53	9	1	35	1.43
33366127--33366164	10	3.9	10	79	6	51	36	0	2	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33371014--33371088	18	4.3	18	68	19	50	34	1	0	64	1.02
33371043--33371095	26	2.0	26	88	0	79	28	3	0	67	1.07
33372332--33372376	23	2.0	23	82	8	56	44	6	0	48	1.29
33372491--33372535	21	2.1	22	91	4	74	62	0	8	28	1.25
33372957--33373164	10	21.4	9	64	22	50	35	1	3	59	1.25
33372995--33373032	12	3.1	13	85	11	53	28	2	0	68	1.03
33373011--33373087	31	2.4	32	83	10	88	41	1	5	51	1.32
33373122--33373164	22	2.0	21	86	13	61	32	0	2	65	1.06
33374002--33374071	22	3.2	22	75	2	61	61	14	8	15	1.56
33374052--33374089	18	2.1	18	90	0	58	68	21	5	5	1.29
33377062--33378281	406	3.0	406	94	0	2124	35	16	21	26	1.95
33382266--33382312	16	2.9	16	78	6	51	4	21	12	61	1.48
33386825--33386871	16	2.9	16	78	6	51	4	21	12	61	1.48
33404076--33404125	20	2.7	18	75	24	59	50	4	2	44	1.32
33404088--33404136	25	1.9	26	84	12	66	48	6	2	42	1.39
33404076--33404170	37	2.6	38	81	9	108	51	5	3	40	1.40
33423267--33423325	30	1.9	31	82	3	75	38	3	22	35	1.71
33423744--33423918	46	3.8	44	74	13	165	21	20	28	30	1.98
33423741--33423911	93	1.8	93	88	0	261	21	20	28	29	1.98
33433286--33433374	34	2.6	34	91	3	144	40	14	17	26	1.89
33434534--33434692	27	5.9	27	82	11	184	34	22	24	18	1.96
33434552--33434692	54	2.6	54	93	2	239	34	23	24	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33436241--33436348	26	4.2	26	97	0	207	36	26	6	30	1.82
33444199--33444252	27	2.0	27	96	0	99	37	12	3	46	1.60
33445859--33445961	42	2.4	41	80	7	109	24	19	27	29	1.98
33445846--33445992	43	3.5	41	78	8	143	25	18	26	29	1.98
33448750--33448849	34	3.0	34	73	16	84	30	22	20	28	1.98
33450225--33450257	17	1.9	17	88	11	50	60	24	9	6	1.49
33458752--33458923	56	3.1	56	89	0	256	34	22	12	29	1.91
33471919--33472102	40	4.6	39	82	4	192	24	22	28	25	1.99
33471919--33472074	79	2.0	79	83	5	199	25	21	28	25	1.99
33471971--33472135	79	2.1	79	80	6	183	26	21	27	24	1.99

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