genome.fa.s18.2.7.7.80.10.50.1000.8.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: D05
Parameters: 2 7 7 80 10 50 1000
Length:  64368997

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   

This is table  8  of  208  ( 24943 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)
3120618--3120658	4	10.0	4	89	7	57	73	21	2	2	1.07
3132639--3132687	18	2.7	19	73	17	50	38	2	0	59	1.09
3132936--3132966	7	4.4	7	91	0	53	70	0	3	25	1.02
3153546--3153598	18	2.7	19	77	11	54	52	3	3	39	1.37
3155220--3155262	21	2.0	21	95	0	77	13	25	18	41	1.88
3155742--3155859	58	2.0	58	100	0	236	26	9	28	35	1.87
3157012--3157042	16	1.9	16	93	0	53	48	9	12	29	1.73
3157987--3158040	16	3.4	17	80	12	69	29	3	7	59	1.42
3157971--3158040	31	2.3	31	85	9	90	30	4	8	57	1.48
3158040--3158087	16	3.0	16	84	0	69	29	16	8	45	1.76
3158598--3158641	20	2.2	21	84	8	56	59	4	9	27	1.48
3162616--3162823	91	2.3	91	92	0	335	45	3	4	46	1.39
3162738--3162798	28	2.2	28	85	5	81	45	0	3	50	1.17
3162656--3162798	44	3.2	43	69	20	121	46	2	3	48	1.31
3162850--3163038	59	3.2	57	68	19	152	41	3	4	50	1.37
3162877--3163075	66	3.2	64	68	19	186	41	3	6	49	1.44
3162839--3163137	120	2.5	120	93	2	510	43	2	5	49	1.37
3162912--3163099	61	3.1	61	69	17	192	42	1	6	48	1.39
3162964--3163015	15	3.6	15	80	12	56	44	0	1	53	1.11
3163080--3163117	17	2.2	17	86	9	51	44	0	0	55	0.99
3163348--3163416	16	4.2	16	94	3	120	39	36	0	24	1.56
3163348--3163416	33	2.1	32	94	2	120	39	36	0	24	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3183580--3183614	14	2.5	14	100	0	70	48	14	5	31	1.67
3195627--3195811	95	1.9	94	89	4	282	30	16	16	36	1.92
3202467--3202499	16	2.0	17	88	5	50	75	6	0	18	1.00
3202681--3202745	20	3.2	20	77	12	60	40	4	1	53	1.31
3204718--3204783	31	2.1	31	85	0	87	46	4	10	37	1.59
3205942--3206034	18	5.2	18	88	0	141	27	23	16	32	1.96
3210637--3210705	18	3.8	18	84	0	93	28	23	14	33	1.94
3211785--3211822	18	2.1	18	95	0	67	0	55	0	44	0.99
3215262--3215314	15	3.2	15	80	17	52	54	1	1	41	1.22
3215345--3215383	20	2.0	20	94	0	69	48	0	2	48	1.15
3215470--3215536	34	1.9	35	93	3	118	46	11	8	32	1.72
3217809--3217848	16	2.5	17	80	19	50	35	5	0	60	1.19
3217838--3217890	26	2.0	26	85	0	70	30	3	9	56	1.49
3230061--3230101	16	2.4	18	80	15	52	58	12	0	29	1.34
3235475--3235514	18	2.3	18	86	4	55	45	0	2	52	1.14
3235474--3235537	22	3.3	19	73	16	51	45	0	3	51	1.17
3235490--3235540	23	2.2	22	80	13	59	49	0	3	47	1.20
3247094--3247123	12	2.4	12	94	5	51	6	16	0	76	0.99
3265755--3265929	90	1.9	92	80	6	205	38	13	17	30	1.88
3271335--3271474	60	2.3	60	91	0	226	17	12	42	26	1.86
3271489--3271529	21	2.0	21	90	0	64	17	4	56	21	1.60
3275441--3275489	18	2.8	18	72	25	50	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3276136--3276180	21	2.1	21	87	0	63	24	0	6	68	1.13
3276567--3276630	25	2.4	25	82	7	74	54	1	1	42	1.19
3276581--3276629	25	1.9	26	91	4	82	51	2	2	44	1.24
3276775--3276823	20	2.3	21	75	6	55	36	0	2	61	1.08
3276776--3276830	21	2.7	20	77	5	56	34	0	1	63	1.05
3310278--3310307	11	2.6	11	94	5	51	60	0	3	36	1.14
3311391--3311467	12	6.6	12	72	26	51	37	1	2	58	1.20
3311391--3311465	19	3.9	18	70	17	62	37	1	2	58	1.20
3312932--3313358	215	2.0	210	93	2	728	30	15	16	37	1.90
3316705--3316730	2	13.0	2	100	0	52	0	50	0	50	1.00
3321719--3321799	42	1.9	42	82	2	99	29	2	4	62	1.29
3329550--3329620	29	2.3	30	79	15	74	64	8	5	21	1.41
3333348--3333495	74	2.0	71	96	3	269	29	27	8	35	1.86
3340334--3340394	31	2.0	31	87	6	88	55	4	0	39	1.21
3351253--3351337	30	2.8	31	79	12	79	61	0	3	35	1.13
3351287--3351337	10	5.1	10	74	9	50	64	0	3	31	1.11
3351546--3351592	19	2.5	19	100	0	94	44	4	0	51	1.21
3351560--3351618	28	2.1	28	83	0	73	37	3	1	57	1.25
3351567--3351628	28	2.2	28	88	2	90	33	1	1	62	1.14
3355927--3355996	31	2.3	31	82	2	88	44	2	7	45	1.46
3360998--3361032	18	1.9	18	88	0	52	62	5	0	31	1.18
3368628--3370287	831	2.0	831	100	0	3320	29	20	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3385337--3385405	33	2.1	34	94	2	122	34	14	13	37	1.85
3385337--3385393	19	3.2	19	65	25	52	36	14	12	36	1.83
3386893--3386949	28	2.0	28	100	0	114	35	21	17	26	1.95
3397072--3397105	17	2.0	17	94	0	59	44	50	0	5	1.26
3401711--3401744	17	2.0	17	94	0	59	44	50	0	5	1.26
3410922--3411052	67	2.0	67	92	0	217	29	33	16	21	1.95
3414368--3414441	21	3.4	20	65	24	51	32	6	6	54	1.53
3414357--3414452	45	2.1	45	100	0	192	30	6	7	56	1.51
3415082--3415114	17	1.9	17	93	0	57	51	18	9	21	1.73
3417230--3417338	55	2.0	55	96	0	200	50	19	12	17	1.78
3419017--3419064	14	3.4	14	85	0	69	37	47	0	14	1.44
3419017--3419083	21	3.2	21	82	0	71	35	46	1	16	1.56
3419362--3419399	14	2.7	14	91	0	67	44	28	0	26	1.54
3419820--3419924	40	2.7	39	80	5	113	19	26	20	33	1.96
3419853--3419929	40	1.9	40	91	0	127	19	20	23	36	1.95
3442209--3442241	13	2.3	15	90	10	52	60	0	0	39	0.97
3442706--3442777	33	2.2	34	80	9	87	50	16	5	27	1.68
3448355--3448423	18	3.8	18	90	0	111	28	24	14	31	1.95
3448354--3448423	36	1.9	36	97	0	131	28	25	14	31	1.95
3468280--3468318	17	2.3	17	86	8	53	30	0	17	51	1.46
3468502--3468584	21	4.0	21	83	0	103	15	24	15	44	1.85
3470427--3470557	61	2.1	61	81	2	156	35	7	16	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3470664--3470765	41	2.5	41	91	0	159	28	17	22	31	1.97
3470664--3470808	41	3.5	41	80	5	143	27	19	23	29	1.98
3474096--3474182	45	1.9	45	88	0	129	35	24	13	26	1.93
3474184--3474327	50	2.9	50	85	3	191	29	28	18	22	1.98
3474184--3474319	51	2.7	51	87	3	186	30	27	18	23	1.98
3477490--3477544	22	2.4	23	87	3	76	27	7	21	43	1.79
3481148--3481187	20	2.0	20	100	0	80	20	25	5	50	1.68
3496555--3496604	25	2.0	25	84	7	66	60	0	0	40	0.97
3499193--3499247	27	2.0	27	86	6	76	29	3	1	65	1.20
3501605--3501631	5	5.4	5	100	0	54	22	0	22	55	1.44
3511342--3511570	76	3.0	76	100	0	458	47	10	22	19	1.79
3523917--3523959	2	21.5	2	95	0	77	51	0	48	0	1.00
3531722--3531815	47	2.0	47	100	0	188	34	27	14	23	1.94
3547214--3547262	23	2.1	24	81	11	57	46	2	40	10	1.49
3551790--3551837	22	2.2	21	85	3	60	35	2	0	62	1.07
3558504--3558540	12	3.0	13	84	11	51	29	40	18	10	1.85
3559688--3559784	40	2.4	41	79	5	117	38	22	22	16	1.93
3559824--3559973	41	3.7	42	84	7	175	22	20	23	33	1.97
3560363--3560421	7	8.4	7	90	0	82	20	0	47	32	1.50
3560383--3560429	14	3.4	14	80	11	51	23	0	46	29	1.52
3560383--3560429	21	2.2	21	84	0	58	23	0	46	29	1.52
3560965--3561039	39	1.9	39	91	0	123	36	16	21	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3560965--3561052	39	2.3	39	87	0	122	37	18	21	22	1.94
3561905--3561982	38	2.1	38	90	0	120	20	14	8	56	1.65
3568105--3568331	43	5.3	43	88	0	330	25	18	26	29	1.98
3569586--3569641	22	2.5	23	82	2	69	51	1	1	44	1.22
3569617--3569656	16	2.5	16	91	0	62	47	2	7	42	1.45
3569667--3569836	59	2.9	59	98	0	322	40	5	9	44	1.59
3569903--3569946	22	1.9	24	86	9	65	59	2	2	36	1.23
3576060--3576110	24	2.2	24	77	22	56	33	0	5	60	1.21
3577335--3577359	6	4.2	6	100	0	50	16	0	0	84	0.63
3584458--3584490	17	1.9	17	100	0	66	18	18	6	57	1.60

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