genome.fa.s17.2.7.7.80.10.50.1000.130.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  130  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)
40491215--40491424	89	2.4	84	83	7	244	30	19	25	25	1.98
40492609--40492634	1	26.0	1	100	0	52	0	0	0	100	0.00
40493139--40493199	19	3.2	19	81	11	70	29	3	0	67	1.07
40493161--40493199	17	2.3	17	86	0	51	30	0	0	69	0.89
40493232--40493291	27	2.3	26	82	5	84	40	8	3	48	1.50
40496620--40496675	22	2.5	22	78	16	62	58	1	0	39	1.08
40501079--40501122	18	2.4	18	88	0	61	13	2	43	40	1.57
40507222--40507300	38	2.1	38	97	0	149	30	8	8	51	1.63
40524244--40524342	45	2.2	45	81	0	117	28	20	27	24	1.99
40524684--40524781	44	2.2	45	88	1	144	30	15	27	26	1.96
40525242--40525329	44	2.0	44	86	0	122	38	29	15	15	1.89
40525871--40525900	8	3.9	8	91	8	53	10	0	0	90	0.47
40525872--40525900	15	1.9	15	100	0	58	10	0	0	89	0.48
40526473--40526514	22	1.9	22	85	9	59	30	2	0	66	1.04
40526445--40526511	33	2.0	33	83	16	86	29	4	0	65	1.12
40526444--40526512	30	2.2	34	78	19	78	31	4	0	63	1.14
40527622--40527762	75	1.9	75	80	5	169	32	5	17	44	1.72
40527857--40527950	41	2.3	41	79	0	98	28	17	23	30	1.97
40528075--40528229	69	2.2	71	83	5	190	31	10	14	43	1.80
40529208--40529261	21	2.6	21	96	0	99	29	22	27	20	1.98
40529889--40529965	9	8.4	9	83	8	84	41	25	9	23	1.84
40538353--40538434	19	4.3	18	76	16	76	30	1	6	62	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40542005--40542053	19	2.5	19	80	3	53	40	0	12	46	1.41
40552455--40552498	18	2.4	18	88	0	61	65	2	2	29	1.16
40552448--40552507	10	6.6	9	74	16	52	68	1	3	26	1.15
40552549--40552592	20	2.2	20	80	15	56	61	0	4	34	1.16
40552680--40552731	10	5.3	10	76	4	52	71	1	0	26	0.97
40552661--40552733	37	2.0	37	83	5	94	67	2	1	28	1.13
40552659--40552778	47	2.6	45	76	10	116	65	3	4	26	1.26
40552718--40552750	17	1.9	17	88	11	50	78	0	6	15	0.93
40555638--40555741	43	2.4	43	82	4	113	26	17	19	36	1.94
40555901--40555958	25	2.3	25	84	0	71	24	10	29	36	1.88
40555940--40556013	25	2.9	25	80	8	78	36	8	20	35	1.82
40557604--40557689	40	2.1	41	93	4	147	22	29	22	26	1.99
40560593--40560723	22	5.9	22	74	3	136	34	16	19	29	1.94
40560553--40560700	67	2.2	68	81	2	172	37	16	17	28	1.91
40560598--40560723	45	2.8	45	87	0	198	34	15	19	29	1.93
40561302--40561365	17	3.8	17	83	8	58	21	4	23	50	1.68
40561353--40561419	18	3.7	18	77	0	71	25	11	14	47	1.79
40565803--40565905	20	5.2	20	64	13	68	29	19	32	19	1.96
40565774--40565905	40	3.3	40	92	0	219	31	18	29	20	1.96
40569924--40569967	21	2.1	21	84	16	56	52	6	0	40	1.28
40570805--40570835	5	6.4	5	92	7	55	38	0	0	61	0.96
40571475--40571506	11	2.9	11	95	0	55	28	31	0	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40571469--40571513	22	2.0	22	83	8	56	26	31	2	40	1.68
40573576--40573616	21	2.0	21	85	0	55	29	39	29	2	1.70
40574513--40574574	32	2.0	32	96	3	117	48	11	6	33	1.65
40579574--40579625	23	2.2	24	89	3	79	1	9	7	80	0.97
40581578--40581861	126	2.3	125	88	0	406	29	18	17	34	1.94
40581907--40582370	97	4.9	96	84	9	556	39	16	2	41	1.63
40591011--40591054	23	1.9	22	82	17	54	36	25	0	38	1.56
40591101--40591187	45	1.9	45	95	0	156	34	24	16	25	1.95
40591208--40591384	51	3.5	51	77	3	196	33	28	15	23	1.95
40597184--40597606	138	3.1	138	90	0	675	40	8	5	45	1.57
40599739--40599827	44	2.0	43	85	8	117	31	23	19	25	1.98
40604340--40604485	40	3.7	40	82	3	177	32	23	13	30	1.92
40604929--40604964	18	1.9	19	88	5	56	44	2	19	33	1.65
40606793--40606820	12	2.3	12	100	0	56	42	7	7	42	1.59
40607568--40607600	17	2.0	16	94	5	57	36	0	3	60	1.12
40611633--40611768	40	3.4	40	78	6	150	36	19	22	22	1.95
40611802--40611958	41	3.8	41	88	1	233	19	21	31	27	1.98
40611802--40611958	83	1.9	83	89	0	242	19	21	31	27	1.98
40612265--40612382	14	8.4	14	71	10	62	21	1	31	45	1.61
40612299--40612408	42	2.6	42	76	9	116	23	0	30	44	1.60
40612300--40612474	7	24.9	7	70	10	70	22	0	36	41	1.58
40612581--40612622	16	2.5	17	92	7	68	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40618396--40618619	43	5.2	42	87	1	286	28	17	26	27	1.98
40618396--40618632	86	2.8	85	87	1	321	28	17	27	26	1.97
40620168--40620212	3	14.3	3	93	4	72	31	0	2	66	1.04
40622535--40622577	19	2.3	19	84	8	52	23	20	16	39	1.92
40624443--40624707	144	1.8	144	85	0	368	29	16	21	32	1.95
40624945--40624990	17	2.6	18	86	6	58	80	0	15	4	0.86
40625323--40625507	97	2.0	95	88	6	279	27	17	7	48	1.74
40626406--40627246	46	18.3	46	87	1	1037	28	17	24	29	1.97
40628859--40628883	3	8.3	3	100	0	50	32	0	0	68	0.90
40633125--40633432	107	2.8	110	86	5	441	29	13	20	35	1.92
40634579--40634621	22	1.9	23	90	4	70	48	2	2	46	1.27
40638339--40638650	25	12.5	25	66	1	104	21	16	26	35	1.94
40638339--40638650	50	6.2	50	81	1	338	21	16	26	35	1.94
40638353--40638625	150	1.8	150	86	1	395	21	16	27	35	1.94
40641846--40641890	20	2.2	21	88	4	65	51	11	13	24	1.73
40650382--40650411	10	3.1	10	95	4	53	36	0	10	53	1.35
40650615--40650692	37	2.1	37	85	0	102	14	14	29	42	1.84
40664145--40664267	57	2.1	57	85	4	158	43	6	21	28	1.77
40664731--40664764	17	2.0	17	88	11	52	5	26	0	67	1.13
40665524--40665614	38	2.4	38	80	7	112	30	15	17	36	1.91
40667322--40667359	19	2.0	19	89	0	58	55	7	5	31	1.51
40667639--40667682	21	2.0	21	82	8	52	63	4	6	25	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40667836--40667890	23	2.3	25	75	15	62	49	3	12	34	1.59
40668166--40668213	24	2.0	25	87	4	71	16	6	2	75	1.11
40697892--40697927	17	2.1	17	90	10	56	77	5	11	5	1.10
40697883--40697935	20	2.7	20	82	5	63	81	5	9	3	0.98
40698024--40698137	57	2.0	56	98	1	219	28	26	14	31	1.94
40698492--40698556	31	2.1	31	97	0	121	44	13	7	33	1.73
40701780--40701818	13	3.1	13	81	7	53	41	15	0	43	1.46
40710995--40711056	30	2.1	30	100	0	124	29	9	9	51	1.66
40714831--40714896	33	2.0	34	85	8	93	56	4	6	33	1.44
40716826--40717037	100	2.1	100	85	1	282	25	18	24	32	1.97
40716824--40717018	50	3.9	50	74	2	158	24	18	24	32	1.97
40716873--40717037	50	3.3	50	73	8	147	25	20	24	29	1.99
40717140--40717257	44	2.7	44	85	0	146	25	22	20	31	1.98
40717254--40717294	19	2.2	19	100	0	82	21	14	14	48	1.80
40717378--40717773	44	9.0	43	70	10	253	27	20	18	32	1.97
40717273--40717625	175	2.0	175	96	0	643	27	20	18	32	1.96
40717329--40717713	88	4.4	88	77	6	431	28	20	18	32	1.96
40717764--40718000	129	1.8	129	89	0	375	23	25	17	33	1.96
40720178--40720279	6	16.7	6	83	4	105	15	4	11	67	1.38
40720174--40720282	50	2.2	51	86	1	148	14	5	11	68	1.36
40720184--40720273	44	2.0	44	84	0	117	15	4	12	67	1.37
40720942--40720998	25	2.2	27	84	12	75	56	7	15	21	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40728511--40728636	50	2.5	51	70	8	123	27	21	22	28	1.99
40728767--40729004	129	1.8	130	90	2	381	28	21	19	30	1.97
40728992--40730057	127	8.3	128	91	1	1636	25	23	19	31	1.98
40729002--40730049	256	4.1	256	90	1	1661	25	23	18	32	1.97
40731038--40731070	17	1.9	17	93	0	57	15	15	0	69	1.19
40741596--40741677	42	1.9	43	87	2	121	37	20	20	20	1.94
40743876--40743930	19	2.9	19	71	15	51	63	1	0	34	1.05
40743885--40743939	29	1.9	29	85	10	78	63	1	1	32	1.15
40748633--40748684	24	2.2	24	82	6	61	65	3	1	28	1.21
40751609--40751691	29	2.9	28	76	3	85	32	8	13	45	1.73

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