genome.fa.s25.2.7.7.80.10.50.1000.140.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  140  of  214  ( 25680 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)
42270519--42270557	9	4.1	9	93	6	60	0	0	12	87	0.55
42272760--42272805	24	1.9	24	86	0	65	15	26	13	45	1.82
42275659--42275754	19	4.7	21	79	10	74	40	15	6	37	1.73
42275659--42275716	22	2.6	22	81	7	64	41	17	5	36	1.72
42275695--42275767	19	3.8	19	92	0	128	36	15	9	38	1.80
42283306--42283381	27	2.8	27	93	0	125	18	22	36	22	1.95
42283442--42283483	22	1.9	22	100	0	84	61	2	30	4	1.29
42283442--42283493	22	2.4	21	90	3	77	67	1	26	3	1.18
42283436--42283493	22	2.6	22	86	5	73	67	1	27	3	1.17
42286818--42286870	6	8.8	6	89	0	79	0	33	30	35	1.58
42288489--42288530	16	2.7	15	85	7	57	57	2	2	38	1.25
42288641--42288714	38	1.9	38	97	0	139	39	2	4	54	1.34
42288844--42288895	21	2.4	23	87	9	74	59	7	0	32	1.26
42288910--42289199	19	15.2	19	66	24	105	53	12	1	32	1.46
42288914--42289073	49	3.3	49	93	2	263	52	14	1	31	1.52
42288910--42289064	76	2.0	75	83	11	192	51	13	1	32	1.52
42288910--42289064	27	6.1	27	80	14	186	51	13	1	32	1.52
42288914--42289175	98	2.7	96	77	10	235	53	13	1	32	1.47
42288910--42289174	49	5.4	48	72	16	154	53	13	1	32	1.47
42289367--42289427	3	21.3	3	83	9	83	0	37	0	62	0.96
42289369--42289431	14	4.2	15	93	6	94	0	39	0	60	0.97
42289368--42289439	14	5.3	13	88	9	83	0	38	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42294031--42294060	14	2.1	14	93	0	51	33	3	0	63	1.11
42298316--42298385	29	2.3	29	85	11	88	58	11	5	24	1.54
42301647--42301685	7	5.4	7	87	6	60	33	0	0	66	0.92
42301647--42301690	15	2.9	15	83	6	54	31	0	0	68	0.90
42307890--42307937	14	3.5	14	85	2	53	56	2	2	39	1.23
42307902--42307946	14	3.3	14	81	3	56	53	2	4	40	1.33
42308879--42308905	14	1.9	14	100	0	54	55	22	0	22	1.44
42312407--42312431	4	6.2	4	100	0	50	76	0	0	24	0.80
42314876--42314920	22	2.0	23	84	16	60	46	8	6	37	1.61
42315404--42315788	189	2.0	190	94	1	684	34	15	14	35	1.88
42318027--42318134	40	2.6	41	75	5	101	30	21	20	27	1.98
42318219--42318467	50	5.0	50	68	1	187	26	22	20	30	1.98
42318145--42318647	100	5.1	100	82	5	540	26	24	20	29	1.99
42318145--42318647	200	2.5	195	83	5	600	26	24	20	29	1.99
42318851--42319020	88	1.9	88	89	2	261	25	25	20	28	1.99
42320286--42320310	13	1.9	13	100	0	50	8	12	0	80	0.92
42320278--42320318	7	5.7	7	86	13	57	9	14	0	75	1.04
42320299--42320338	18	2.2	18	90	0	62	12	12	0	75	1.06
42320821--42320867	6	7.7	6	97	2	85	0	0	14	85	0.61
42320811--42320867	18	3.2	18	83	14	73	0	1	14	84	0.71
42325368--42325402	15	2.3	15	90	5	52	65	0	0	34	0.93
42325992--42326033	22	1.9	23	85	9	61	69	7	19	4	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42326916--42326988	29	2.5	30	78	10	87	57	6	5	30	1.47
42327144--42327230	23	3.6	25	75	16	76	57	5	3	33	1.39
42330500--42330611	56	2.0	56	96	0	206	26	14	21	37	1.92
42330601--42330746	74	2.0	74	100	0	292	26	16	29	28	1.97
42339318--42339357	21	1.9	21	85	10	55	47	27	2	22	1.64
42347156--42347184	3	9.7	3	100	0	58	68	0	0	31	0.89
42347440--42347484	23	2.0	23	86	4	65	33	4	15	46	1.66
42347745--42347774	7	4.4	7	91	8	53	26	0	0	73	0.84
42347798--42347848	3	17.0	3	87	0	66	27	1	5	64	1.27
42347797--42347848	21	2.5	21	93	0	86	26	1	7	63	1.32
42347801--42347848	18	2.7	18	90	0	78	27	2	6	64	1.28
42347969--42348012	17	2.6	17	85	3	63	40	11	0	47	1.39
42348084--42348131	23	2.1	23	88	7	71	29	6	0	64	1.18
42348168--42348224	30	1.9	30	89	7	89	35	3	3	57	1.33
42357344--42357370	14	1.9	14	100	0	54	51	0	0	48	1.00
42358549--42358669	61	2.0	61	93	0	206	50	2	6	40	1.42
42360216--42360298	31	2.6	30	75	9	85	26	12	10	50	1.72
42360735--42360793	22	2.7	22	86	0	73	47	40	1	10	1.47
42360863--42360901	17	2.4	17	82	4	53	56	2	2	38	1.27
42361066--42361117	15	3.2	16	82	12	63	38	0	0	61	0.96
42361508--42361638	64	2.0	64	100	0	262	25	19	18	37	1.94
42371629--42371688	29	2.1	29	100	0	120	21	6	40	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42371671--42371720	22	2.3	22	92	0	82	32	2	26	40	1.67
42373084--42373396	159	2.0	160	90	0	502	23	16	19	39	1.92
42375896--42375955	28	2.3	27	80	16	72	35	0	0	65	0.93
42375902--42375945	19	2.3	19	80	11	54	36	0	0	63	0.95
42379346--42379374	8	3.6	8	100	0	58	75	0	0	24	0.80
42380887--42381071	92	2.0	92	94	2	327	28	3	25	42	1.72
42386730--42386775	21	2.2	21	96	0	83	41	23	0	34	1.55
42389259--42389312	7	7.7	7	95	0	90	68	0	0	31	0.90
42391278--42391406	54	2.4	54	78	2	134	23	23	24	28	1.99
42406726--42406770	23	2.0	23	86	4	65	82	4	0	13	0.82
42409176--42409292	48	2.5	48	90	2	175	35	21	14	29	1.93
42417111--42417149	17	2.4	17	86	4	53	38	5	2	53	1.37
42419211--42419247	17	2.1	18	90	5	58	21	27	37	13	1.91
42420186--42420234	18	2.7	18	81	6	55	40	4	20	34	1.71
42422040--42422133	24	3.8	24	74	4	80	19	25	20	35	1.96
42422086--42422133	25	1.9	25	91	0	78	22	27	18	31	1.97
42429839--42429895	24	2.4	24	84	0	69	12	28	24	35	1.91
42430070--42430095	9	2.9	9	100	0	52	34	34	23	7	1.83
42431685--42431767	26	3.0	26	67	16	67	36	8	1	54	1.39
42431731--42431814	42	2.0	44	83	9	111	38	10	0	51	1.37
42431667--42431781	58	2.0	58	88	3	171	39	8	1	50	1.44
42437142--42437189	13	3.7	12	81	13	51	77	2	16	4	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42438931--42439100	88	1.9	87	82	5	209	27	20	23	28	1.99
42438534--42438982	132	3.4	132	91	0	736	28	21	25	25	1.99
42438534--42439013	265	1.8	264	88	1	728	27	21	25	25	1.99
42439557--42439632	40	1.9	40	97	0	143	34	14	26	25	1.94
42441572--42441695	63	2.0	63	87	7	180	39	8	1	50	1.44
42441774--42441822	15	2.9	17	77	20	50	20	6	2	71	1.18
42455170--42455212	16	2.6	16	81	3	50	20	32	32	13	1.92
42455431--42455475	18	2.6	18	82	3	56	22	0	31	46	1.52
42456758--42456808	26	2.0	26	84	7	68	29	1	0	68	1.00
42456758--42456809	27	2.0	26	88	3	77	28	1	0	69	0.99
42458098--42458122	6	4.2	6	100	0	50	68	0	16	16	1.22
42459377--42459420	22	2.0	22	82	8	54	47	4	9	38	1.56
42460850--42460898	3	16.3	3	100	0	98	32	0	0	67	0.91
42461053--42461099	21	2.2	21	81	7	60	29	6	8	55	1.55
42461808--42461871	31	2.1	31	82	11	78	42	18	0	39	1.51
42462975--42463016	17	2.5	17	88	3	59	30	9	0	59	1.29
42463335--42463371	18	2.1	18	94	0	65	27	13	0	59	1.35
42466351--42466507	57	2.7	57	88	6	228	28	12	10	48	1.75
42468245--42468610	182	2.0	182	97	0	696	30	26	20	22	1.98
42469959--42470007	23	2.1	22	82	14	55	26	4	16	53	1.61
42470105--42470159	3	18.3	3	100	0	110	0	0	32	67	0.91
42470301--42470329	13	2.2	13	100	0	58	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42471940--42471991	27	1.9	27	85	14	72	23	40	1	34	1.66
42487661--42487707	13	3.2	15	73	14	53	48	0	0	51	1.00
42487717--42487749	13	2.4	14	85	10	50	48	0	0	51	1.00
42492500--42492562	32	1.9	33	84	9	85	55	6	17	20	1.63
42492683--42492711	3	9.7	3	100	0	58	68	0	0	31	0.89
42498889--42498934	22	2.1	22	83	0	56	15	10	13	60	1.58
42498900--42498942	22	2.0	22	90	0	68	20	9	9	60	1.55
42512265--42512327	31	2.0	31	93	0	108	34	6	9	49	1.61
42512740--42512812	28	2.6	28	93	0	119	36	2	6	53	1.42
42519278--42519316	19	2.1	19	85	9	53	10	17	0	71	1.12

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