genome.fa.s15.2.7.7.80.10.50.1000.13.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: Dt_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  57797951

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   

This is table  13  of  187  ( 22379 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)
3314172--3314213	21	2.0	20	90	4	66	28	0	26	45	1.54
3314080--3315155	23	45.5	23	75	18	804	27	1	25	46	1.59
3314079--3315089	68	14.4	63	75	20	516	27	0	25	46	1.59
3314408--3314462	28	2.0	28	96	0	101	27	1	25	45	1.64
3314080--3315089	191	5.4	188	80	14	935	27	0	25	46	1.59
3314197--3315085	212	4.2	209	89	8	1181	27	0	24	46	1.59
3315048--3315153	53	2.0	53	81	0	122	23	2	25	48	1.65
3315161--3315246	43	2.0	45	90	4	140	50	12	0	37	1.41
3315669--3315703	18	1.9	18	94	0	61	34	8	31	25	1.86
3316355--3316379	7	3.6	7	100	0	50	60	12	0	28	1.32
3317609--3317659	22	2.3	22	96	0	93	41	0	31	27	1.56
3317522--3317637	51	2.3	51	95	0	205	45	0	25	28	1.54
3318018--3318056	16	2.4	16	86	4	51	48	2	10	38	1.51
3325549--3325593	23	2.0	22	83	12	56	28	4	24	42	1.74
3333164--3333512	27	13.0	27	84	0	414	32	20	22	25	1.98
3333530--3333651	24	5.1	24	79	0	109	31	7	17	44	1.76
3333811--3333995	32	5.8	32	84	0	226	24	19	18	37	1.94
3333813--3333995	96	1.9	96	88	0	276	25	19	18	37	1.94
3334002--3334047	22	2.1	22	83	0	56	17	17	17	47	1.83
3336051--3336173	36	3.5	36	81	5	144	23	16	17	43	1.88
3343287--3343380	19	4.8	19	87	5	134	36	10	15	37	1.83
3343287--3343387	40	2.7	38	85	8	134	36	9	16	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3346528--3346552	11	2.3	11	100	0	50	44	0	0	56	0.99
3349584--3349751	27	6.3	27	77	2	115	27	18	14	38	1.90
3349571--3349748	54	3.3	54	80	2	153	28	19	15	37	1.91
3352105--3352189	27	3.1	27	82	0	71	23	30	11	34	1.91
3352309--3352463	54	2.9	53	78	10	145	27	23	17	32	1.97
3352331--3352463	27	5.0	26	83	1	140	29	21	17	31	1.96
3364764--3365103	51	6.7	51	79	6	318	30	26	15	27	1.96
3364761--3365103	102	3.4	102	81	5	383	30	26	15	27	1.96
3364759--3365102	153	2.3	150	78	7	374	30	26	15	27	1.96
3370443--3370482	18	2.2	18	86	0	53	20	20	27	32	1.97
3377942--3377975	17	2.0	17	100	0	68	47	17	0	35	1.48
3383676--3383749	37	2.0	37	100	0	148	35	8	18	37	1.81
3384958--3385075	54	2.3	50	82	10	132	27	11	20	41	1.85
3389038--3389063	13	2.0	13	100	0	52	46	0	0	53	1.00
3395021--3395131	37	2.8	40	74	8	111	29	27	20	22	1.99
3395453--3395527	19	4.0	19	72	20	77	37	26	0	36	1.57
3396422--3396455	9	3.9	9	84	7	52	2	17	0	79	0.86
3396422--3396455	17	2.0	17	94	0	59	2	17	0	79	0.86
3396464--3396535	5	14.4	5	75	20	62	55	4	1	38	1.28
3396465--3396507	19	2.3	19	92	8	70	55	0	2	41	1.12
3396471--3396536	24	2.7	24	81	9	71	57	4	1	36	1.28
3398097--3398160	12	5.3	12	71	0	56	54	21	12	10	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3398088--3398160	24	3.0	24	97	0	137	52	23	12	12	1.72
3398453--3398480	13	2.2	13	100	0	56	46	25	7	21	1.76
3399417--3399484	22	3.1	22	81	8	84	39	20	23	16	1.91
3399479--3399544	22	2.7	23	79	13	71	30	18	31	19	1.96
3399417--3399546	47	2.8	45	79	5	136	36	20	26	16	1.94
3399490--3399532	22	2.0	22	95	0	77	30	20	32	16	1.95
3400498--3400531	17	2.0	17	88	0	50	35	11	17	35	1.87
3407976--3408031	15	3.7	15	87	0	85	21	7	37	33	1.81
3407976--3408033	30	1.9	30	92	0	98	22	6	36	34	1.81
3410272--3410319	21	2.3	21	92	0	78	25	25	31	18	1.98
3411433--3411468	18	1.9	19	94	5	65	50	5	0	44	1.25
3411437--3411479	18	2.3	18	84	11	52	51	6	0	41	1.29
3425801--3425913	27	4.2	26	76	5	100	17	17	32	31	1.94
3425819--3425980	54	3.0	54	80	5	141	18	17	32	32	1.94
3425904--3426004	27	3.7	27	74	2	87	20	18	31	28	1.97
3430586--3430627	18	2.3	19	83	4	50	11	11	7	69	1.37
3430592--3430628	19	2.0	18	89	5	56	10	13	5	70	1.32
3431409--3431467	27	2.3	27	81	18	74	66	3	8	22	1.34
3435832--3435865	12	2.8	12	95	0	59	58	0	23	17	1.38
3435831--3435865	18	1.9	18	94	0	61	60	0	22	17	1.37
3444073--3444137	8	7.9	8	76	6	67	15	4	12	67	1.37
3447157--3447225	27	2.6	27	83	0	84	17	37	28	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3447278--3447432	10	15.3	10	73	18	99	70	0	27	1	0.95
3447278--3447462	4	49.0	4	69	24	77	69	0	28	1	0.99
3447278--3447457	14	13.5	14	69	16	100	69	0	28	1	1.00
3447290--3447386	34	2.9	33	78	17	110	73	0	25	1	0.90
3447278--3447457	44	4.2	43	79	14	167	69	0	28	1	1.00
3447278--3447458	10	17.8	10	71	18	90	69	0	28	1	0.99
3447792--3448565	159	4.9	153	76	14	746	50	7	11	30	1.65
3447792--3448565	317	2.4	317	92	1	1291	50	7	11	30	1.65
3450220--3450245	12	2.2	12	100	0	52	26	38	26	7	1.83
3450637--3450669	14	2.4	14	100	0	66	36	6	0	57	1.23
3453707--3453832	40	3.1	41	77	10	109	48	12	5	33	1.64
3453987--3454025	10	3.8	10	83	6	51	2	23	0	74	0.94
3454114--3454203	27	3.3	27	92	3	146	18	24	34	22	1.96
3459427--3459479	4	13.5	4	80	11	65	73	3	0	22	0.99
3460400--3460474	19	3.8	19	89	6	123	36	18	10	34	1.86
3460393--3460470	40	2.0	38	92	5	129	35	19	10	34	1.85
3483380--3483644	134	2.0	132	90	2	415	38	14	15	32	1.88
3490079--3490154	32	2.3	33	82	11	84	77	3	7	10	1.10
3491018--3491066	21	2.4	21	83	10	57	73	0	14	12	1.10
3491024--3491069	14	3.1	14	87	6	56	71	0	15	13	1.14
3492325--3492416	44	2.1	44	89	0	139	32	19	22	25	1.97
3492398--3492603	44	4.4	43	65	20	112	32	18	20	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3492334--3492653	142	2.3	142	93	0	568	33	18	20	27	1.96
3492711--3493122	50	8.3	50	74	3	337	35	23	17	23	1.95
3492679--3493074	100	4.0	101	83	3	453	35	22	17	23	1.96
3500362--3500401	17	2.2	19	86	8	57	65	0	15	20	1.28
3502213--3502257	23	2.0	23	90	0	72	28	17	15	37	1.91
3502236--3502825	199	3.0	199	96	0	1090	30	16	18	34	1.93
3503811--3503856	24	2.0	23	83	8	58	52	2	2	43	1.25
3521095--3521124	14	2.1	14	100	0	60	36	13	0	50	1.42
3533846--3534055	40	5.3	39	89	4	242	25	21	27	25	1.99
3533793--3534055	120	2.2	120	82	4	309	25	21	27	25	1.99
3533794--3534090	80	3.7	80	81	6	230	26	21	27	24	1.99
3541796--3542005	40	5.3	39	87	5	233	24	21	28	25	1.99
3541743--3542005	120	2.2	120	81	4	300	25	21	27	25	1.99
3541796--3542040	80	3.1	80	81	3	228	25	21	28	24	1.99
3546249--3546437	44	4.3	44	70	9	127	30	21	22	25	1.99
3546384--3546503	44	2.7	43	81	6	118	33	20	22	24	1.97
3546971--3547025	20	2.8	20	88	0	92	49	38	10	1	1.49
3554326--3554356	15	2.1	15	93	0	53	25	3	19	51	1.62
3554815--3554856	21	2.0	21	90	0	66	23	23	23	28	2.00
3559234--3559293	30	2.0	30	90	0	93	15	20	41	23	1.89
3561412--3561449	19	2.0	19	90	10	60	15	2	7	73	1.17
3565497--3565541	19	2.3	19	84	3	54	31	6	0	62	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3565576--3565618	16	2.8	15	79	6	50	34	4	4	55	1.41
3567801--3567842	22	1.9	22	85	9	59	28	14	2	54	1.52
3573774--3573804	12	2.5	13	94	5	55	16	22	0	61	1.34
3580163--3580239	40	1.9	40	89	0	118	37	20	9	32	1.84
3581031--3581101	37	1.9	37	86	11	101	32	4	1	61	1.23
3581275--3581300	11	2.4	11	100	0	52	38	0	0	61	0.96
3581568--3581606	7	5.6	7	100	0	78	53	0	0	46	1.00
3581809--3581872	34	1.9	33	81	12	78	60	0	3	35	1.12
3584596--3584656	18	3.6	17	77	18	56	32	3	1	62	1.21
3584890--3584945	25	2.2	25	87	0	76	28	19	21	30	1.98

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