genome.fa.s25.2.7.7.80.10.50.1000.100.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  100  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)
29135843--29135869	14	1.9	14	100	0	54	37	0	25	37	1.57
29140558--29140742	43	4.3	43	88	2	230	32	25	17	24	1.97
29140558--29140743	86	2.2	85	86	4	257	32	25	17	24	1.97
29140598--29140765	43	3.9	43	88	1	176	30	25	19	25	1.98
29142421--29142521	42	2.4	43	83	1	123	27	18	22	30	1.98
29143311--29143490	44	4.1	44	91	1	272	26	9	21	42	1.83
29143308--29143480	22	7.9	22	84	1	213	27	9	20	42	1.82
29164267--29164416	55	2.8	54	80	4	149	26	15	29	28	1.96
29164239--29164416	27	6.6	27	77	6	146	25	15	28	30	1.96
29164240--29164395	82	1.9	81	81	6	190	25	16	28	30	1.96
29179320--29179423	37	2.8	37	80	11	106	38	29	16	15	1.89
29200031--29200079	25	2.0	25	87	0	71	38	14	14	32	1.86
29204599--29204639	23	1.9	22	85	14	59	43	2	0	53	1.13
29206202--29206268	34	1.9	35	87	3	100	44	14	8	31	1.76
29206976--29207040	16	4.1	16	91	0	112	40	4	35	20	1.73
29211092--29211121	14	2.2	13	94	5	51	60	0	0	40	0.97
29215945--29216003	15	3.9	15	90	0	91	67	0	0	32	0.91
29215945--29216000	5	11.2	5	90	0	76	67	0	0	32	0.91
29222133--29222166	14	2.4	14	100	0	68	26	8	20	44	1.81
29228076--29228110	10	3.5	10	88	0	52	48	22	2	25	1.64
29230669--29230743	26	2.8	27	85	4	98	41	18	18	21	1.91
29230668--29230800	27	5.0	27	80	7	112	38	18	21	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29230735--29230935	27	7.4	27	85	0	240	36	18	21	23	1.95
29230735--29230935	81	2.5	81	86	3	278	36	18	21	23	1.95
29230952--29231086	24	5.6	24	88	0	162	26	5	22	45	1.75
29231154--29231213	27	2.2	27	85	11	79	21	23	21	33	1.97
29231249--29231419	32	5.4	32	85	1	209	23	19	18	38	1.93
29231249--29231418	63	2.7	64	87	1	252	24	19	18	37	1.94
29231234--29231419	95	2.0	95	83	2	239	23	19	18	38	1.93
29232528--29232566	20	2.0	20	90	10	62	15	23	5	56	1.59
29232775--29233009	50	4.6	50	75	7	190	23	27	21	27	1.99
29240128--29240162	10	3.5	10	84	0	52	51	25	0	22	1.48
29240124--29240161	20	1.9	20	100	0	76	52	26	0	21	1.47
29249310--29249409	50	2.0	50	98	0	191	37	6	12	45	1.66
29250447--29250515	11	6.1	11	72	11	59	50	0	1	47	1.09
29267158--29267361	41	5.0	41	80	4	241	34	17	28	20	1.95
29270411--29270463	25	2.1	25	85	0	70	28	22	18	30	1.98
29273493--29273761	137	2.0	136	82	2	333	34	23	19	22	1.96
29275439--29275505	26	2.6	26	82	0	89	25	23	26	23	2.00
29275937--29276458	257	2.0	259	95	1	942	33	6	22	37	1.81
29278178--29278570	196	2.0	196	97	0	741	25	6	25	41	1.79
29279479--29279507	15	1.9	15	100	0	58	31	13	27	27	1.94
29282218--29282258	20	2.0	21	85	9	57	29	21	4	43	1.73
29282336--29282460	50	2.5	51	85	1	153	31	28	15	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29289988--29290171	51	3.6	51	81	5	194	32	27	15	25	1.96
29302684--29302720	16	2.3	16	90	0	56	10	32	0	56	1.34
29311886--29311967	27	3.1	26	77	18	80	46	9	19	24	1.80
29324896--29324928	17	1.9	17	93	0	57	18	15	12	54	1.71
29330528--29330560	13	2.6	13	85	4	50	18	6	9	66	1.40
29330958--29331006	25	2.0	25	95	0	89	30	12	28	28	1.93
29330959--29331000	13	3.3	13	75	18	52	28	11	28	30	1.92
29358082--29358120	14	2.6	14	84	8	51	2	23	7	66	1.30
29368020--29368049	15	2.0	15	93	0	51	56	6	3	33	1.42
29377601--29377646	19	2.4	19	92	0	74	26	28	19	26	1.99
29387536--29387683	41	3.6	41	87	0	215	23	30	13	32	1.93
29387536--29387683	21	7.2	20	66	13	77	23	30	13	32	1.93
29387539--29387698	82	2.0	82	91	0	257	24	28	13	33	1.94
29391437--29391548	4	29.2	4	94	5	189	52	0	22	25	1.47
29391548--29391637	1	90.0	1	100	0	180	100	0	0	0	0.00
29391637--29392957	4	333.0	4	95	2	2042	54	0	22	23	1.45
29392312--29392392	1	81.0	1	100	0	162	100	0	0	0	0.00
29393511--29393561	16	3.3	15	81	8	57	33	27	15	23	1.95
29398214--29398254	21	2.0	21	85	9	57	36	17	7	39	1.77
29403659--29403881	39	5.7	40	84	8	257	25	21	27	25	2.00
29403659--29403881	79	2.8	81	82	11	266	25	21	27	25	2.00
29403659--29403914	79	3.3	79	81	10	208	26	21	27	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29411397--29411580	40	4.7	40	77	11	175	26	20	26	26	1.99
29413779--29413820	15	2.7	15	75	17	50	16	9	11	61	1.55
29428492--29428516	13	1.9	13	100	0	50	76	0	8	16	1.02
29432376--29432435	30	2.0	30	96	0	111	35	13	15	36	1.86
29434806--29434854	20	2.5	20	86	6	64	42	12	14	30	1.82
29441767--29441795	3	9.7	3	100	0	58	68	0	31	0	0.89
29441918--29441991	3	24.7	3	100	0	148	67	0	32	0	0.91
29450869--29450947	37	2.1	37	90	0	122	25	31	18	24	1.98
29451065--29451747	47	14.4	47	93	1	1114	29	29	8	32	1.87
29451065--29451747	143	4.8	141	93	1	1123	29	29	8	32	1.87
29451065--29451747	190	3.6	190	95	0	1199	29	29	8	32	1.87
29456243--29456278	18	2.0	18	88	0	54	33	13	13	38	1.85
29456341--29456392	20	2.6	20	93	0	86	34	5	15	44	1.70
29456604--29456674	30	2.4	29	83	9	81	36	22	18	22	1.95
29456628--29456686	30	2.0	30	96	0	109	40	23	15	20	1.90
29458111--29458149	20	2.0	20	90	10	62	15	23	5	56	1.59
29459718--29459947	50	4.6	50	92	1	354	17	31	22	28	1.97
29459975--29460062	44	2.0	44	93	0	149	25	19	11	44	1.84
29461572--29461755	50	3.6	50	80	6	163	25	29	19	26	1.99
29461618--29461754	50	2.6	52	83	9	179	23	32	19	24	1.98
29462795--29462961	50	3.2	50	77	7	120	24	26	20	28	1.99
29462833--29462959	50	2.4	50	87	7	164	25	26	19	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29466087--29466183	48	2.0	49	91	2	160	28	25	10	35	1.89
29474482--29474518	18	1.9	18	89	10	56	64	0	35	0	0.94
29482516--29482571	27	2.1	27	86	3	78	26	23	23	26	2.00
29482557--29482650	26	3.6	26	81	2	100	29	25	10	34	1.90
29487626--29487657	7	4.6	7	100	0	64	12	12	0	75	1.06
29487627--29487719	42	2.2	43	83	12	122	24	19	5	50	1.68
29491988--29492114	43	3.0	42	83	3	139	26	14	25	33	1.94
29492042--29492140	43	2.3	43	82	1	117	28	15	24	32	1.95
29497325--29497366	10	4.3	10	82	17	61	21	19	2	57	1.52
29507890--29507986	42	2.4	41	87	3	151	19	23	27	28	1.98
29508057--29508096	21	1.9	21	89	0	62	27	17	12	42	1.85
29526505--29526570	33	2.0	32	97	2	123	54	18	7	19	1.67
29528184--29529860	558	3.0	558	97	0	3180	34	13	21	31	1.92
29532225--29532249	13	1.9	13	100	0	50	32	20	16	32	1.94
29532796--29532973	27	6.6	27	83	3	205	26	15	28	29	1.96
29532797--29532952	82	1.9	81	88	3	233	26	15	28	29	1.96
29532793--29532973	82	2.2	81	83	2	229	27	15	27	29	1.96
29532878--29532984	27	3.9	27	85	1	70	26	14	28	30	1.95
29540128--29540152	13	1.9	13	100	0	50	32	20	16	32	1.94
29540699--29540876	27	6.6	27	83	3	205	26	15	28	29	1.96
29540700--29540855	82	1.9	81	88	3	233	26	15	28	29	1.96
29540696--29540876	82	2.2	81	83	2	229	27	15	27	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29540781--29540887	27	3.9	27	85	1	70	26	14	28	30	1.95
29554333--29554374	22	1.9	23	85	9	61	66	7	2	23	1.28
29554514--29554596	30	2.7	31	76	14	82	59	4	2	33	1.32
29554733--29554776	17	2.6	17	85	3	63	47	0	11	40	1.39
29554965--29555554	88	6.7	88	82	1	664	23	25	24	26	2.00
29555065--29555553	264	1.9	264	91	0	798	22	25	24	26	2.00
29557745--29557805	26	2.3	26	83	5	70	57	4	14	22	1.57
29561451--29561492	22	1.9	23	85	9	61	66	7	2	23	1.28
29561633--29561715	30	2.7	31	78	14	91	57	6	2	33	1.36
29562378--29562429	21	2.6	20	93	6	88	36	15	11	36	1.84

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