genome.fa.s25.2.7.7.80.10.50.1000.39.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  39  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)
10692769--10693239	244	1.9	244	93	0	816	43	12	15	28	1.84
10708250--10708425	35	5.1	35	72	9	137	36	24	20	18	1.95
10708247--10708470	69	3.2	69	85	0	286	33	24	22	20	1.97
10708508--10708554	20	2.4	21	86	10	64	42	19	0	38	1.51
10722683--10722720	19	2.0	19	94	0	67	57	10	7	23	1.58
10722947--10722988	15	2.7	16	82	10	52	59	9	23	7	1.53
10726541--10726582	15	2.7	16	82	10	52	59	9	23	7	1.53
10736870--10736938	30	2.3	30	90	7	106	57	0	5	36	1.22
10740791--10740926	55	2.4	56	84	6	168	48	5	0	45	1.30
10760369--10760417	25	2.0	25	91	0	80	32	18	20	28	1.96
10771480--10771568	18	4.9	18	85	0	97	31	21	13	33	1.92
10771478--10771568	36	2.5	36	83	0	119	30	20	14	34	1.93
10787088--10787128	18	2.3	18	87	8	57	58	2	0	39	1.11
10787859--10787902	20	2.2	20	88	8	63	65	0	0	34	0.93
10789230--10789286	30	1.9	30	89	7	89	36	1	1	59	1.18
10789294--10789344	10	5.4	9	76	15	50	33	0	0	66	0.92
10789300--10789346	20	2.3	20	85	10	60	31	0	0	68	0.90
10789292--10789353	20	3.2	19	72	18	56	38	0	0	61	0.96
10800005--10800066	21	3.0	21	88	4	83	17	25	14	41	1.88
10807663--10807722	21	3.0	21	80	4	70	16	23	18	41	1.90
10813396--10813438	11	3.8	11	80	17	52	65	2	2	30	1.18
10815232--10815290	26	2.3	26	84	0	73	40	10	15	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10815438--10815583	73	2.0	73	100	0	292	31	20	26	21	1.98
10817156--10817264	30	3.6	30	78	9	114	31	2	19	46	1.64
10829837--10829880	21	2.0	22	82	4	54	38	15	6	38	1.75
10829831--10829882	21	2.5	20	75	9	50	40	17	7	34	1.78
10841408--10841476	5	13.8	5	100	0	138	39	0	20	40	1.52
10846379--10846415	19	1.9	19	100	0	74	27	10	29	32	1.90
10852961--10853093	68	2.0	67	93	1	230	41	14	13	30	1.84
10855070--10855113	23	1.9	23	95	0	79	36	18	6	38	1.77
10855991--10856040	25	2.0	25	96	0	91	24	26	8	42	1.82
10855948--10856086	71	2.0	68	91	4	224	26	24	13	35	1.93
10856016--10856180	46	3.6	46	96	0	294	29	22	13	34	1.93
10862411--10862729	50	6.4	50	81	3	372	26	21	30	22	1.99
10862411--10862729	100	3.2	98	87	4	424	26	21	30	22	1.99
10866285--10866407	36	3.4	36	77	4	149	19	2	67	10	1.32
10866325--10866443	36	3.1	36	71	17	105	19	3	67	10	1.34
10866289--10866440	78	2.1	67	79	15	169	18	3	68	9	1.32
10874042--10874144	51	2.0	51	94	3	181	39	21	10	28	1.86
10875992--10876026	14	2.5	14	90	0	52	62	8	2	25	1.38
10878159--10878262	25	4.2	24	73	8	70	23	26	19	30	1.98
10880312--10880407	25	3.7	25	77	9	86	31	22	26	19	1.98
10880367--10880479	24	4.8	24	74	9	72	34	18	27	19	1.95
10880524--10880605	26	3.3	26	78	11	75	34	20	25	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10889047--10889127	24	3.3	24	77	11	76	28	9	2	59	1.42
10889395--10889438	16	2.5	17	82	14	54	29	0	11	59	1.32
10892470--10892518	25	1.9	26	91	4	82	65	0	2	32	1.04
10892616--10892673	25	2.3	26	82	11	75	63	1	5	29	1.25
10893348--10893399	15	3.6	14	74	20	54	9	7	1	80	0.97
10894482--10894530	25	1.9	26	91	4	82	32	0	0	67	0.91
10894505--10894566	19	3.4	18	76	14	56	33	4	0	61	1.17
10894482--10894537	26	2.2	26	87	6	78	33	0	0	66	0.92
10894653--10894724	25	2.7	26	81	12	85	33	1	1	63	1.11
10898376--10898408	17	1.9	17	93	0	57	15	12	15	57	1.65
10903941--10903973	17	1.9	18	88	11	52	45	0	12	42	1.41
10906483--10906558	38	2.0	38	100	0	152	23	2	26	47	1.65
10909423--10909565	31	4.6	31	73	5	110	43	14	10	31	1.80
10909407--10909799	61	6.4	60	74	12	280	43	17	6	31	1.75
10909510--10909838	31	10.7	31	72	13	214	44	18	5	31	1.72
10909448--10909841	61	6.4	61	74	12	261	44	18	6	30	1.75
10909461--10909888	92	4.7	92	88	2	549	43	18	7	31	1.77
10909889--10909942	25	2.2	25	86	6	74	48	12	11	27	1.76
10915218--10915304	34	2.6	33	85	1	102	47	16	6	29	1.72
10915236--10915319	34	2.5	34	84	1	89	45	15	7	32	1.73
10918181--10918238	19	3.1	19	72	22	59	48	0	0	51	1.00
10922986--10923034	19	2.9	16	80	20	55	28	4	0	67	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10930128--10930242	57	2.0	57	100	0	230	32	10	22	34	1.88
10931626--10931807	24	7.5	24	76	3	109	20	25	20	32	1.97
10931717--10931832	25	4.6	25	77	8	103	20	26	18	33	1.96
10933866--10933893	9	3.1	9	100	0	56	64	10	10	14	1.50
10934763--10934807	22	2.0	22	100	0	90	22	8	17	51	1.73
10938952--10939052	24	3.9	24	70	16	76	18	26	21	32	1.97
10939008--10939118	25	4.5	26	76	11	92	20	27	19	31	1.97
10941979--10942030	15	3.2	15	73	19	50	44	0	1	53	1.11
10942063--10942099	16	2.3	16	86	13	58	40	0	0	59	0.97
10942267--10942319	27	2.0	27	81	7	63	41	5	7	45	1.56
10943823--10944016	98	2.0	98	95	0	352	37	25	10	26	1.89
10944689--10944739	27	2.0	26	88	7	77	56	3	7	31	1.46
10945497--10945628	19	6.8	19	91	3	219	36	15	10	37	1.82
10945490--10945627	59	2.4	59	91	4	221	36	14	10	38	1.80
10945980--10946270	89	3.3	89	77	12	357	27	25	19	27	1.99
10946069--10946349	84	3.3	84	76	12	336	29	24	19	26	1.99
10945812--10946355	44	12.6	43	71	10	296	28	24	19	27	1.99
10945942--10946349	173	2.4	173	92	0	674	28	24	19	27	1.99
10946433--10946919	44	11.1	44	65	13	187	24	26	20	29	1.99
10946341--10946993	132	4.9	132	92	1	1103	24	25	20	29	1.99
10950815--10950866	14	3.4	14	76	19	59	48	13	17	21	1.81
10950815--10950872	19	3.4	19	71	26	65	44	15	17	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10950829--10950884	18	3.3	18	71	19	57	42	14	21	21	1.88
10950815--10950884	32	2.2	32	94	0	122	44	14	20	21	1.86
10954059--10954253	98	2.0	98	95	0	354	36	25	10	27	1.89
10954927--10954974	25	2.0	25	87	4	71	54	4	8	33	1.50
10955743--10955825	19	4.4	19	95	0	148	38	12	9	39	1.75
10957601--10957726	61	2.1	61	84	0	162	38	6	15	40	1.72
10964270--10964533	40	6.7	40	87	5	342	25	21	27	25	1.99
10964270--10964566	119	2.5	118	80	10	322	26	20	27	25	1.99
10971601--10971824	79	2.8	80	86	7	289	25	21	27	25	2.00
10971601--10971824	40	5.7	40	86	6	289	25	21	27	25	2.00
10971601--10971857	79	3.2	80	82	8	244	26	21	27	24	1.99
10981987--10982077	36	2.5	36	82	5	112	36	35	14	14	1.86
10983449--10983479	15	2.1	15	93	0	53	67	16	0	16	1.23
10983599--10983634	18	1.9	20	88	11	58	75	2	8	13	1.15
10983988--10984057	23	3.1	22	76	15	63	75	1	1	21	0.96
10983988--10984056	7	9.4	7	73	6	57	75	1	1	21	0.96
10985485--10986093	267	2.3	267	89	0	923	25	25	20	28	1.99
11004712--11004808	30	3.3	30	85	1	124	37	14	17	30	1.90
11011835--11011863	14	2.0	15	93	6	51	0	13	0	86	0.58
11019427--11019619	50	3.8	50	88	6	273	20	30	21	26	1.98
11030084--11030110	7	3.9	7	100	0	54	88	0	11	0	0.50
11032154--11032193	2	20.0	2	100	0	80	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11037777--11037813	17	2.1	18	90	5	58	43	5	5	45	1.49
11041141--11041202	31	2.0	31	100	0	124	38	3	16	41	1.64
11045627--11045687	21	2.9	21	90	0	86	47	14	22	14	1.81
11047425--11047495	26	2.8	26	80	2	81	33	22	25	18	1.96
11055682--11056044	50	7.3	50	92	0	566	26	19	31	22	1.98
11057243--11057293	23	2.2	23	89	0	75	41	19	9	29	1.84
11062041--11062120	24	3.3	24	76	10	83	32	21	28	17	1.96
11062041--11062142	24	4.2	24	76	8	82	33	19	29	17	1.95
11079479--11079604	58	2.2	58	88	5	184	46	4	16	31	1.68
11086280--11086324	18	2.4	18	81	3	54	66	0	0	33	0.92

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