genome.fa.s17.2.7.7.80.10.50.1000.36.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  36  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)
9902564--9902669	26	4.2	24	76	8	88	33	21	26	18	1.97
9902480--9902669	25	7.7	26	72	11	89	34	22	24	18	1.96
9907228--9907462	116	2.0	116	94	0	407	33	16	18	31	1.93
9910246--9910312	26	2.6	26	83	2	82	41	19	22	16	1.90
9915507--9915538	7	4.6	7	96	0	55	43	56	0	0	0.99
9926159--9926187	6	4.8	6	100	0	58	86	13	0	0	0.58
9930650--9930690	22	1.9	21	90	5	64	36	0	9	53	1.34
9937116--9937314	68	3.0	67	72	18	191	40	4	6	48	1.48
9937186--9937302	62	1.9	62	84	5	159	40	3	6	49	1.46
9941934--9941977	15	2.7	17	82	6	56	59	6	0	34	1.24
9942108--9942159	16	3.2	16	100	0	104	25	0	36	38	1.56
9942140--9942230	45	2.0	45	85	2	121	26	7	28	37	1.84
9942395--9942429	18	2.0	17	88	5	52	54	0	0	45	0.99
9942378--9943268	120	7.4	120	94	1	1459	49	5	2	42	1.37
9942675--9942872	66	3.2	65	66	21	161	48	6	2	43	1.39
9942373--9943268	479	1.9	480	92	1	1521	49	5	2	42	1.37
9942992--9943033	16	2.6	17	81	7	52	59	0	0	40	0.97
9943114--9943161	18	2.8	18	74	22	50	56	0	0	43	0.99
9943093--9943144	15	3.6	15	80	12	56	53	1	0	44	1.11
9943234--9943267	17	2.0	17	88	11	52	52	0	2	44	1.16
9943309--9943369	28	2.2	28	85	5	81	50	3	0	45	1.17
9943316--9943459	47	3.1	46	65	23	113	49	4	2	44	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9943309--9943451	44	3.2	43	68	16	119	48	3	2	46	1.31
9943334--9943473	47	3.0	47	67	17	139	48	4	2	44	1.37
9943284--9943498	91	2.4	91	92	0	333	46	4	3	45	1.40
9949234--9949285	18	2.8	19	71	8	54	53	1	1	42	1.23
9967171--9967198	6	4.7	6	100	0	56	85	14	0	0	0.59
9971604--9971643	20	1.9	21	90	10	64	37	0	10	52	1.35
9978045--9978243	68	3.0	67	72	18	191	40	4	6	48	1.48
9978115--9978231	62	1.9	62	84	5	159	40	3	6	49	1.46
9983039--9983107	16	4.2	16	96	3	129	24	0	37	37	1.56
9983039--9983107	33	2.1	32	97	2	129	24	0	37	37	1.56
9983088--9983178	45	2.0	45	85	2	121	26	7	28	37	1.84
9983343--9983377	18	2.0	17	88	5	52	54	0	0	45	0.99
9983326--9984218	120	7.4	120	94	1	1452	49	5	2	43	1.37
9983623--9983820	66	3.2	65	66	21	161	48	5	2	43	1.39
9983940--9983981	16	2.6	17	81	7	52	59	0	0	40	0.97
9984062--9984109	18	2.8	18	74	22	50	56	0	0	43	0.99
9984041--9984092	15	3.6	15	80	12	56	53	1	0	44	1.11
9984180--9984217	17	2.2	17	90	9	60	55	0	2	42	1.14
9984259--9984319	28	2.2	28	85	5	81	50	3	0	45	1.17
9983321--9984222	479	1.9	478	92	1	1470	49	4	2	43	1.37
9984266--9984409	47	3.1	46	65	23	113	49	4	2	44	1.33
9984234--9984446	91	2.3	91	94	0	363	46	4	3	46	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9984259--9984401	44	3.2	43	68	16	119	48	3	2	46	1.31
9984284--9984423	47	3.0	47	67	17	139	48	4	2	44	1.37
10008508--10008576	21	3.3	21	75	0	66	27	21	31	18	1.97
10021583--10021639	21	2.7	21	75	5	62	19	22	17	40	1.91
10021625--10021685	20	3.0	21	70	4	61	18	31	16	34	1.93
10031047--10031106	26	2.3	26	85	5	77	46	13	6	33	1.69
10041024--10041080	26	2.2	26	83	0	69	17	26	19	36	1.94
10041059--10041196	73	1.9	73	85	8	192	20	26	19	33	1.96
10042459--10042542	42	2.0	42	90	0	132	15	27	27	29	1.96
10042459--10042554	42	2.3	42	87	0	120	16	29	26	28	1.97
10044289--10044338	22	2.3	22	79	6	57	20	24	12	44	1.85
10050179--10050210	8	4.0	8	100	0	64	37	0	0	62	0.95
10050850--10050916	22	3.0	22	80	0	80	14	23	19	41	1.89
10052915--10052974	28	2.2	27	88	8	86	33	25	21	20	1.97
10053435--10053527	27	3.4	27	82	8	109	19	13	19	47	1.82
10055682--10055730	25	2.0	25	87	0	71	34	26	20	18	1.95
10058193--10058239	16	2.9	16	81	6	51	59	0	4	36	1.17
10058225--10058288	7	9.7	7	71	21	50	56	3	3	37	1.31
10059157--10059213	19	3.0	19	97	0	105	17	21	35	26	1.95
10068354--10069013	331	2.0	328	83	3	817	24	21	17	36	1.94
10072084--10072114	16	1.9	16	93	0	53	45	0	6	48	1.28
10075397--10075440	22	2.0	22	86	8	63	52	2	6	38	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10077797--10077826	13	2.3	13	94	0	51	56	6	6	30	1.51
10077999--10078208	105	2.0	105	99	0	411	47	16	9	27	1.76
10079183--10079215	17	2.0	17	88	5	50	36	0	0	63	0.95
10079341--10079390	22	2.2	22	82	3	55	58	2	2	38	1.21
10081479--10081516	19	2.0	20	89	5	60	55	0	0	44	0.99
10081696--10081733	19	2.1	18	90	5	58	39	0	0	60	0.97
10081703--10081746	23	1.9	23	81	9	54	38	2	0	59	1.10
10085076--10085168	42	2.2	42	80	3	98	26	16	20	36	1.93
10094646--10094702	25	2.3	25	90	0	96	40	15	22	21	1.91
10097962--10097986	13	1.9	13	100	0	50	24	28	0	48	1.52
10104914--10104973	22	2.8	22	80	7	70	38	18	25	18	1.93
10104951--10105033	25	3.4	25	89	1	123	40	19	20	19	1.91
10104912--10105033	49	2.6	46	81	14	126	40	18	22	18	1.92
10117092--10117149	27	2.1	29	84	12	77	39	0	0	60	0.97
10117117--10117160	18	2.4	18	85	10	63	36	0	2	61	1.09
10117117--10117165	17	2.8	17	85	11	64	34	0	2	63	1.06
10137876--10137986	58	1.9	58	100	0	222	43	12	9	35	1.74
10144977--10145104	49	2.5	51	92	3	215	34	16	24	25	1.95
10145080--10145228	31	4.8	31	94	0	253	26	20	28	25	1.99
10145246--10145410	47	3.7	46	84	6	169	28	15	26	29	1.96
10145340--10145454	42	2.7	43	89	4	171	30	14	26	27	1.95
10159332--10160173	88	9.6	89	80	3	837	28	16	25	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10159327--10160173	132	6.4	133	87	3	890	28	15	25	29	1.96
10159355--10160104	177	4.2	178	87	2	933	28	16	25	30	1.96
10161974--10162008	17	2.1	17	89	10	54	28	11	0	60	1.32
10163455--10163494	19	2.1	19	86	9	55	60	5	0	35	1.19
10175616--10175642	4	6.8	4	100	0	54	48	0	0	51	1.00
10185624--10185655	14	2.3	14	100	0	64	31	46	15	6	1.71
10188719--10188775	21	2.8	21	78	2	62	17	21	35	26	1.95
10188776--10188822	22	2.1	22	84	0	58	17	10	44	27	1.81
10189181--10189349	90	1.9	90	86	4	243	41	3	5	49	1.42
10191286--10191518	104	2.2	104	93	1	387	17	18	29	33	1.94
10191468--10191545	27	2.9	27	90	0	120	12	24	33	29	1.92
10201138--10201166	15	1.9	15	100	0	58	58	0	0	41	0.98
10201782--10201825	22	2.0	22	82	8	54	54	2	0	43	1.12
10202826--10202875	20	2.5	20	71	15	50	48	2	0	50	1.12
10213095--10213196	31	3.4	30	79	18	92	34	1	0	63	1.05
10213120--10213181	14	4.4	14	73	15	56	35	3	0	61	1.12
10213111--10213210	31	3.2	31	84	10	134	34	3	0	63	1.10
10213819--10213847	3	9.7	3	100	0	58	31	0	0	68	0.89
10214417--10214453	13	2.7	14	84	16	51	21	5	5	67	1.31
10215360--10215914	114	4.9	114	88	1	772	28	25	20	25	1.99
10245240--10245281	20	2.1	20	86	0	57	64	0	2	33	1.07
10245451--10245497	22	2.0	24	84	8	62	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10245523--10245555	17	2.0	17	94	5	59	18	12	6	63	1.48
10246328--10246420	31	3.1	30	81	6	107	46	5	4	44	1.46
10247660--10247728	29	2.3	30	78	9	79	21	15	20	42	1.89
10256551--10256577	14	1.9	14	100	0	54	37	3	7	51	1.48
10264845--10264876	3	10.7	3	100	0	64	0	65	0	34	0.93
10264879--10264924	3	15.3	3	100	0	92	0	32	0	67	0.91
10272190--10272250	31	2.1	31	81	9	74	26	13	13	47	1.79
10277230--10277262	16	2.1	16	94	0	57	33	0	36	30	1.58
10277241--10277335	45	2.1	44	88	1	136	34	5	27	32	1.79
10277497--10277531	18	2.0	17	88	5	52	54	0	0	45	0.99

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   176   
          177   178   179   180   181   182   183   184   185