genome.fa.s25.2.7.7.80.10.50.1000.154.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  154  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)
45897921--45898036	3	39.3	3	68	16	55	0	36	1	61	1.12
45897980--45898026	13	3.5	13	82	8	51	0	34	0	65	0.93
45898744--45898788	3	16.0	3	77	13	51	66	0	28	4	1.11
45898744--45898788	8	5.3	9	76	15	51	66	0	28	4	1.11
45899088--45899193	50	2.1	49	83	8	133	22	5	9	62	1.47
45899135--45899167	12	2.8	12	95	0	57	24	0	6	69	1.10
45899294--45899415	51	2.5	47	80	10	136	63	7	9	19	1.46
45899325--45899409	17	5.1	17	68	12	59	65	7	9	17	1.43
45899346--45899880	157	3.4	157	89	2	795	54	8	7	28	1.58
45904959--45905100	76	1.9	76	86	2	205	52	11	4	30	1.59
45905334--45905387	20	2.8	20	76	18	60	1	27	0	70	0.98
45909039--45909104	32	2.1	32	100	0	132	15	12	15	57	1.65
45911575--45911679	52	2.0	52	100	0	210	27	20	13	38	1.90
45914179--45914226	20	2.4	20	89	0	69	33	14	20	31	1.93
45917085--45917116	16	1.9	17	93	6	57	75	3	18	3	1.08
45918017--45918072	25	2.2	25	87	0	76	17	26	21	33	1.96
45929198--45929247	12	4.2	12	84	0	55	24	2	8	66	1.29
45929216--45929247	3	10.7	3	93	0	55	31	3	0	65	1.08
45938424--45938448	12	2.1	12	100	0	50	24	36	24	16	1.94
45938606--45938669	9	7.2	9	89	3	85	39	26	10	23	1.88
45938606--45938669	18	3.6	18	85	4	94	39	26	10	23	1.88
45939826--45939865	3	13.3	3	100	0	80	0	32	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45948214--45948259	22	2.1	22	88	8	67	41	4	13	41	1.63
45949319--45949360	4	10.5	4	100	0	84	76	0	23	0	0.79
45951046--45951106	22	2.8	22	85	2	70	65	1	1	31	1.12
45951079--45951126	15	3.3	14	80	8	60	58	0	4	37	1.18
45956850--45957040	95	2.0	95	98	0	373	25	18	13	41	1.87
45966434--45966477	22	2.2	20	84	12	54	47	11	15	25	1.79
45972817--45972887	29	2.4	29	85	4	88	23	14	14	47	1.80
45972837--45972913	29	2.6	29	83	4	82	25	12	14	46	1.80
45973476--45973544	29	2.3	29	85	5	84	47	15	14	21	1.81
45975254--45975286	13	2.6	13	90	4	50	51	0	3	45	1.16
45975664--45975709	19	2.3	22	85	14	64	41	2	0	56	1.11
45986325--45986363	18	2.0	20	85	9	55	41	2	0	56	1.13
46000248--46000277	10	3.1	10	90	9	53	50	0	0	50	1.00
46000245--46000278	9	3.7	9	92	7	59	52	0	0	47	1.00
46007175--46007243	29	2.3	30	73	9	70	40	8	7	43	1.63
46009114--46009159	24	2.0	22	83	8	56	39	10	2	47	1.51
46009983--46010031	20	2.5	20	86	6	64	32	2	4	61	1.26
46016646--46016778	37	3.6	36	85	8	162	56	3	9	30	1.49
46016790--46016834	22	2.0	23	91	4	74	37	6	26	28	1.82
46017916--46017978	24	2.7	22	75	22	65	44	3	1	50	1.27
46024051--46024092	22	1.9	22	85	9	59	35	4	11	47	1.61
46027298--46027335	17	2.4	17	86	8	53	65	0	18	15	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46030673--46030723	18	2.8	18	75	0	66	13	43	3	39	1.63
46033475--46033514	20	2.0	20	90	0	62	50	12	10	27	1.72
46033463--46033529	34	1.9	35	90	3	109	46	13	8	31	1.74
46033498--46033537	14	2.9	14	84	0	53	42	17	7	32	1.77
46039545--46039703	43	3.7	42	79	4	167	32	27	15	23	1.95
46039545--46039709	86	1.9	84	83	8	208	33	27	15	24	1.95
46040692--46040718	13	2.1	13	100	0	54	48	22	0	29	1.51
46055245--46055291	24	1.9	24	86	4	67	40	4	0	55	1.19
46058719--46058756	16	2.4	17	87	12	55	42	0	5	52	1.24
46060456--46060502	23	2.0	23	84	8	60	36	4	8	51	1.52
46060481--46060788	17	18.3	16	73	16	191	44	12	10	32	1.76
46060480--46060798	34	9.4	34	74	12	221	44	12	10	32	1.77
46060616--46060778	35	4.7	35	77	9	147	44	12	12	30	1.79
46060634--46060810	35	5.1	35	76	12	125	43	12	14	29	1.82
46060950--46061000	17	3.0	16	77	11	57	72	1	0	25	0.95
46061129--46061186	10	6.7	9	78	13	52	0	15	1	82	0.74
46061127--46061188	17	3.8	16	81	14	74	0	16	1	82	0.75
46061139--46061188	16	3.3	15	84	15	68	0	16	0	84	0.63
46061305--46061358	23	2.3	24	93	6	101	0	25	9	64	1.23
46061477--46061548	3	24.0	3	78	16	62	0	29	0	70	0.87
46061476--46061548	13	6.0	12	83	15	80	0	28	0	71	0.87
46061608--46061648	19	2.3	19	84	12	52	0	31	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46061603--46061650	17	2.8	16	78	12	51	0	31	0	68	0.90
46061881--46061997	30	3.9	30	78	7	114	44	2	22	30	1.66
46061896--46061997	30	3.4	30	83	2	125	44	2	22	30	1.68
46061993--46062027	14	2.4	15	90	4	54	28	0	2	68	1.04
46062268--46062910	54	12.0	54	89	7	985	37	17	15	29	1.90
46062268--46062910	158	4.0	160	92	4	1011	37	17	15	29	1.90
46062268--46062910	266	2.4	265	93	3	1080	37	17	15	29	1.90
46062858--46063477	72	8.5	72	94	1	1024	33	18	16	30	1.93
46062858--46063477	145	4.3	145	94	0	1053	33	18	16	30	1.93
46063474--46063508	17	2.1	17	88	0	52	65	5	11	17	1.43
46063492--46063810	123	2.6	122	92	3	521	36	21	14	27	1.92
46072051--46072361	17	18.4	17	71	15	166	44	11	10	34	1.75
46072020--46072073	21	2.6	20	77	8	63	40	7	9	42	1.65
46072197--46072364	35	4.8	36	76	8	152	43	11	11	33	1.77
46072523--46072573	17	3.0	16	77	11	57	72	1	0	25	0.95
46072702--46072758	9	6.7	9	78	10	50	0	15	1	82	0.75
46072699--46072760	17	3.9	16	83	12	83	0	17	1	80	0.79
46072816--46072870	17	3.2	17	71	19	60	0	34	43	21	1.53
46072877--46072930	23	2.3	24	90	6	92	1	25	9	62	1.35
46072918--46072972	17	3.4	16	83	14	60	0	9	14	76	1.02
46072918--46072973	18	3.4	16	79	13	60	0	8	14	76	1.00
46072928--46072980	18	2.9	18	72	11	54	0	9	15	75	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46073064--46073123	24	2.5	24	86	7	79	0	33	0	66	0.92
46073052--46073123	3	24.0	3	78	16	62	0	30	0	69	0.89
46073075--46073123	13	3.9	13	75	24	52	0	36	0	63	0.95
46073092--46073120	10	2.9	10	100	0	58	0	37	0	62	0.96
46073178--46073222	17	2.6	17	83	10	56	0	33	0	66	0.92
46073181--46073222	18	2.4	18	80	7	52	0	30	0	69	0.89
46073456--46073572	30	3.9	30	78	7	114	44	2	22	30	1.66
46073471--46073572	30	3.4	30	83	2	125	44	2	22	30	1.68
46073568--46073602	14	2.4	15	90	4	54	25	0	2	71	1.00
46074080--46074123	4	11.0	4	100	0	88	50	25	0	25	1.50
46074412--46074471	30	2.0	30	90	0	93	8	48	10	33	1.67
46079082--46079145	29	2.2	30	83	8	78	39	0	35	25	1.56
46078976--46079238	139	1.9	142	83	5	347	38	0	36	25	1.56
46081578--46081625	16	3.1	15	90	6	69	64	2	2	31	1.16
46081574--46081629	24	2.3	24	81	6	69	66	1	1	30	1.12
46081574--46081625	8	6.5	8	82	8	61	65	1	1	30	1.14
46081747--46081803	19	2.8	20	73	7	62	56	5	7	31	1.49
46081782--46081903	25	5.0	24	75	10	86	54	4	7	32	1.49
46081832--46081898	27	2.6	25	80	4	80	58	4	5	31	1.42
46081776--46081991	23	9.0	25	73	13	134	55	4	6	34	1.44
46082481--46082655	30	5.8	30	88	1	228	21	4	48	26	1.68
46083363--46083540	76	2.4	76	88	2	261	33	24	19	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46083642--46083868	76	3.0	75	85	3	289	32	20	17	30	1.95
46083678--46083882	76	2.7	76	87	2	290	31	20	15	32	1.94
46083791--46083956	91	1.8	90	85	6	237	34	19	17	28	1.94
46083881--46084048	72	2.3	74	82	3	205	37	19	16	26	1.93
46084028--46084077	14	3.6	14	81	7	57	64	4	12	20	1.43
46083876--46084233	176	2.0	181	87	6	530	39	18	16	25	1.91
46084057--46084284	79	3.0	76	83	8	270	35	19	16	28	1.94
46084100--46084464	71	4.8	74	77	13	273	35	18	15	30	1.92
46083550--46084439	416	2.1	407	84	5	1144	36	18	16	28	1.93
46084180--46084533	159	2.2	154	83	9	430	34	18	16	31	1.93

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