genome.fa.s19.2.7.7.80.10.50.1000.138.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   

This is table  138  of  230  ( 27491 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)
40553211--40553274	25	2.6	25	79	0	92	26	25	25	23	2.00
40554585--40554630	24	1.9	24	95	0	83	39	19	17	23	1.92
40560144--40560198	25	2.2	25	80	6	67	50	29	10	9	1.68
40568807--40568850	22	2.1	22	80	12	58	72	2	2	22	1.07
40569685--40569734	22	2.3	22	89	6	75	44	12	10	34	1.75
40574831--40575038	91	2.3	91	92	0	335	45	3	4	46	1.39
40574953--40575013	28	2.2	28	85	5	81	45	0	3	50	1.17
40574871--40575013	44	3.2	43	69	20	121	46	2	3	48	1.31
40575065--40575253	59	3.2	57	68	19	152	41	3	4	50	1.37
40575092--40575290	66	3.2	64	68	19	186	41	3	6	49	1.44
40575054--40575351	120	2.5	120	93	1	517	42	2	5	49	1.37
40575127--40575314	61	3.1	61	69	17	192	42	1	6	48	1.39
40575179--40575230	15	3.6	15	80	12	56	44	0	1	53	1.11
40575295--40575329	18	2.0	17	88	5	52	45	0	0	54	0.99
40575494--40575584	45	2.0	45	85	2	121	37	28	6	27	1.82
40575565--40575633	16	4.2	16	96	3	129	37	37	0	24	1.56
40575565--40575633	33	2.1	32	97	2	129	37	37	0	24	1.56
40577133--40577163	16	1.9	16	93	0	53	48	0	3	48	1.17
40578452--40578498	16	3.3	14	80	11	51	46	0	0	53	1.00
40578486--40578586	29	3.3	31	71	21	88	42	0	0	55	1.13
40582637--40582685	16	3.1	16	81	0	62	32	26	4	36	1.75
40586800--40586876	38	2.0	38	94	0	136	35	12	11	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40604494--40604727	50	4.6	51	75	9	192	27	18	28	25	1.98
40604541--40604727	100	1.8	102	81	6	234	26	18	29	25	1.98
40606262--40606312	23	2.2	23	89	0	75	41	19	9	29	1.84
40612821--40613043	27	8.3	27	72	13	124	30	14	28	26	1.95
40612889--40613055	54	3.1	54	68	19	166	27	15	30	26	1.96
40612858--40613107	108	2.3	108	92	2	405	28	15	28	27	1.96
40613142--40613325	53	3.5	53	81	0	215	40	11	21	26	1.87
40613147--40613317	27	6.4	27	70	9	118	40	11	22	25	1.88
40623863--40623989	40	3.2	40	88	0	191	20	29	18	32	1.96
40623863--40623926	20	3.2	20	65	8	58	18	32	20	28	1.96
40623884--40623945	20	3.1	20	68	9	54	14	33	19	32	1.92
40627559--40627619	32	1.9	32	86	6	88	31	21	18	29	1.96
40633049--40633226	27	6.6	27	79	3	106	28	28	16	26	1.97
40633075--40633225	82	1.9	81	85	4	214	27	27	17	27	1.97
40653673--40653758	25	3.4	25	86	0	109	29	16	25	29	1.97
40659938--40660010	38	1.9	37	86	8	103	31	21	1	45	1.61
40660140--40660284	23	6.3	23	90	0	236	32	25	20	21	1.98
40663037--40663162	49	2.6	49	86	5	177	30	25	15	27	1.96
40665127--40665199	38	1.9	37	86	8	103	31	21	1	45	1.61
40665329--40665447	23	5.2	23	94	0	202	32	26	21	20	1.97
40668000--40668040	18	2.3	18	87	4	66	31	9	21	36	1.86
40668909--40669125	71	3.1	70	62	21	157	46	6	9	37	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40668813--40669234	138	3.1	138	90	0	684	44	5	8	40	1.59
40671376--40671414	3	13.0	3	100	0	78	33	33	0	33	1.58
40676059--40676119	28	2.1	29	82	14	74	57	1	1	39	1.18
40679810--40679860	17	2.8	18	70	21	52	19	11	33	35	1.88
40680711--40680770	29	2.1	29	100	0	120	31	16	6	45	1.74
40680711--40680759	16	3.2	16	66	16	50	30	12	8	48	1.69
40681138--40681669	288	1.9	285	87	4	791	31	15	19	33	1.94
40682442--40682576	49	2.7	49	83	4	146	31	20	15	32	1.93
40682472--40682576	49	2.1	49	89	1	156	32	20	15	32	1.93
40683594--40683623	15	2.0	15	93	0	51	76	0	10	13	1.01
40691144--40691266	55	2.2	56	86	2	167	26	13	28	32	1.93
40691144--40691266	28	4.4	28	89	2	167	26	13	28	32	1.93
40693491--40694441	131	7.3	130	90	2	1222	25	23	19	31	1.98
40695680--40695713	7	5.0	7	92	7	61	14	14	0	70	1.17
40695680--40695709	13	2.3	13	100	0	60	13	13	0	73	1.10
40696684--40696733	1	50.0	1	79	0	55	2	0	8	90	0.54
40696663--40696725	29	2.1	29	88	5	90	1	4	9	84	0.84
40696663--40696733	28	2.4	30	86	6	92	2	4	8	84	0.84
40696670--40696725	9	5.8	9	83	12	67	0	5	8	85	0.73
40696684--40696725	20	2.1	20	100	0	84	0	0	9	90	0.45
40699684--40699904	119	1.9	120	83	6	297	25	28	21	24	1.99
40699682--40699906	79	2.8	79	83	5	256	25	28	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40699682--40699906	40	5.7	40	84	6	278	25	28	21	24	1.99
40716581--40716714	39	3.4	39	90	4	207	29	1	21	47	1.60
40723553--40723587	17	2.0	17	88	5	52	40	2	20	37	1.67
40723632--40723732	48	2.1	47	88	1	148	26	12	23	36	1.91
40725504--40725686	40	4.6	39	82	4	197	25	27	21	25	1.99
40725618--40725695	40	1.9	41	82	10	97	26	28	21	23	1.99
40733333--40733515	40	4.6	39	82	4	197	25	27	21	25	1.99
40733447--40733524	40	1.9	41	82	10	97	26	28	21	23	1.99
40748990--40749053	27	2.4	27	87	7	87	17	18	18	45	1.86
40748990--40749063	26	2.8	25	80	11	85	17	17	20	44	1.87
40748990--40749073	27	3.2	26	80	8	80	17	16	20	45	1.86
40755473--40755564	28	3.3	28	87	0	130	29	19	23	27	1.98
40755899--40756060	27	6.0	27	81	2	182	16	16	21	46	1.84
40755904--40756060	81	1.9	81	84	5	210	15	15	21	47	1.83
40760179--40760216	19	2.0	19	89	0	58	5	26	21	47	1.71
40774148--40774370	119	1.9	120	83	6	292	25	27	22	24	2.00
40774146--40774370	40	5.7	40	84	6	278	25	28	22	24	1.99
40789587--40789616	13	2.2	14	94	5	53	56	0	6	36	1.26
40805441--40805506	30	2.2	30	94	0	114	24	33	24	18	1.97
40806122--40806151	16	1.9	16	93	6	53	50	20	0	30	1.49
40808300--40808374	38	2.0	38	97	0	141	48	0	6	45	1.29
40808338--40808455	48	2.4	49	91	4	186	48	0	9	41	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40808338--40808408	22	3.0	22	64	20	54	46	0	9	43	1.37
40812331--40812501	40	4.3	40	88	3	220	25	28	21	25	1.99
40812331--40812555	80	2.8	79	80	7	213	26	27	20	25	1.99
40828912--40829136	40	5.7	40	82	8	235	27	27	20	25	1.99
40829068--40829145	40	1.9	41	82	10	97	26	28	20	24	1.99
40835549--40835692	42	3.4	43	85	3	195	32	18	18	29	1.95
40837049--40837078	16	1.9	15	93	6	51	26	23	13	36	1.92
40838913--40839019	37	2.9	37	66	5	99	23	16	23	36	1.94
40846457--40846695	50	4.7	50	74	6	221	26	16	27	29	1.97
40846457--40846696	101	2.4	101	83	4	295	26	16	27	30	1.97
40856119--40856239	50	2.4	50	83	0	143	27	23	28	20	1.99
40856512--40856550	20	2.0	20	90	10	62	56	5	23	15	1.59
40865481--40865616	50	2.7	50	83	1	157	28	22	27	20	1.99
40865873--40865911	20	2.0	20	90	10	62	56	5	23	15	1.59
40872255--40872284	12	2.4	13	94	5	53	20	6	6	66	1.38
40874016--40874151	40	3.4	40	76	4	96	35	22	22	19	1.96
40874191--40874296	41	2.6	41	85	5	160	22	17	27	32	1.97
40874554--40874586	15	2.3	15	94	5	59	33	0	33	33	1.58
40874669--40874728	14	4.3	14	84	0	66	21	0	45	33	1.52
40874669--40874720	7	7.4	7	84	0	68	19	0	46	34	1.50
40874669--40874728	21	2.9	21	78	14	70	21	0	45	33	1.52
40876167--40876248	38	2.2	38	88	0	119	20	14	8	56	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40879517--40879673	43	3.7	42	86	5	210	24	17	25	32	1.97
40880020--40880272	69	3.6	69	76	8	185	54	4	6	34	1.47
40880077--40880266	23	8.2	24	75	11	119	55	4	6	33	1.44
40880066--40880283	24	9.3	23	73	9	140	55	4	5	33	1.45
40880066--40880271	70	3.0	69	76	7	209	55	4	5	33	1.45
40881052--40881105	18	2.8	20	75	11	67	16	29	5	48	1.69
40881565--40882284	44	16.7	44	71	11	240	28	20	19	31	1.97
40881525--40882195	173	3.9	172	84	4	800	28	21	18	31	1.97
40881786--40882030	129	1.9	128	81	6	298	28	19	20	31	1.97
40881955--40882304	129	2.7	129	83	3	409	26	21	21	31	1.98

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230