genome.fa.s5.2.7.7.80.10.50.1000.12.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  56894857

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   

This is table  12  of  185  ( 22150 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)
3271387--3271557	71	2.5	65	80	14	209	32	0	14	52	1.47
3271695--3271738	16	2.8	16	82	0	61	56	2	2	38	1.24
3271771--3271852	38	2.2	38	97	0	155	39	2	3	54	1.31
3271885--3272006	60	2.0	60	87	3	174	54	13	0	31	1.46
3272021--3272157	8	15.4	8	69	19	76	49	15	0	34	1.50
3272047--3272371	27	12.8	27	72	20	249	53	14	0	32	1.43
3272068--3272371	46	6.2	47	70	20	180	53	14	0	31	1.43
3272300--3272370	21	3.1	21	78	20	79	57	12	0	29	1.35
3272440--3272506	27	2.5	27	97	0	125	11	32	23	31	1.91
3274217--3274265	24	2.0	24	100	0	98	28	8	28	34	1.86
3276974--3277001	4	7.0	4	100	0	56	75	0	25	0	0.81
3278501--3278566	29	2.2	29	97	2	123	27	16	16	39	1.90
3278667--3278699	16	2.0	17	88	5	50	15	42	0	42	1.46
3282225--3282261	18	2.1	18	94	0	65	48	5	8	37	1.56
3286383--3286414	15	2.2	15	94	5	57	65	0	0	34	0.93
3286891--3286941	20	2.8	17	75	16	57	43	1	3	50	1.31
3292254--3292321	34	2.0	34	83	11	86	27	23	27	20	1.99
3295067--3295165	17	5.8	17	69	25	59	53	5	2	39	1.34
3298292--3298324	14	2.4	14	94	0	57	54	12	0	33	1.37
3300633--3300688	27	2.0	29	82	10	71	41	12	8	37	1.74
3313244--3313268	6	4.2	6	100	0	50	36	0	16	48	1.46
3314659--3314705	2	23.5	2	82	0	58	42	48	8	0	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3316423--3316471	9	5.4	9	92	0	80	38	26	10	24	1.87
3316636--3316713	38	2.0	39	92	2	131	16	2	28	52	1.57
3316695--3316732	17	2.2	18	90	4	60	7	0	47	44	1.32
3316713--3316744	13	2.5	13	95	5	57	15	0	40	43	1.47
3316694--3316757	30	2.1	31	88	2	94	15	0	40	43	1.47
3317370--3317406	9	4.1	9	85	0	56	48	13	8	29	1.71
3323692--3323952	124	2.1	125	90	1	418	30	16	22	30	1.96
3341122--3341179	27	2.1	27	80	0	62	24	1	15	58	1.46
3347649--3347691	13	3.3	13	78	9	52	48	0	6	44	1.29
3347645--3347697	27	2.0	26	82	13	65	49	1	5	43	1.37
3348562--3348686	43	2.9	42	81	9	144	20	20	30	29	1.97
3353535--3353574	18	2.2	18	86	0	53	65	2	25	7	1.32
3356001--3356030	10	3.1	10	95	4	53	0	10	0	90	0.47
3356001--3356040	9	4.4	9	84	9	55	2	10	0	87	0.63
3356008--3356040	17	1.9	17	93	0	57	3	9	0	87	0.63
3361797--3361874	13	6.3	13	73	19	60	28	7	1	62	1.30
3361795--3361846	23	2.3	23	80	3	70	28	7	1	61	1.34
3362059--3362088	16	1.9	15	93	6	51	20	6	3	70	1.25
3363689--3363746	30	1.9	31	85	3	82	13	31	41	13	1.84
3366661--3366738	13	6.3	13	73	19	60	28	7	1	62	1.30
3366660--3366710	23	2.3	23	82	3	68	29	5	1	62	1.29
3366924--3366953	16	1.9	15	93	6	51	20	6	3	70	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3371732--3371773	9	4.9	9	88	11	70	57	9	0	33	1.31
3371739--3371776	16	2.4	16	95	0	67	55	10	0	34	1.34
3378616--3378718	44	2.3	44	81	0	134	34	17	23	24	1.96
3380026--3380092	31	2.2	28	80	12	71	13	10	1	74	1.14
3381247--3381299	27	2.0	27	96	0	97	18	13	35	32	1.90
3381558--3381649	45	2.0	45	100	0	184	30	8	15	45	1.76
3387656--3387701	18	2.6	18	96	0	83	26	4	2	67	1.21
3387676--3387721	23	2.0	23	86	0	65	21	2	6	69	1.22
3391609--3391675	6	11.3	6	85	6	59	17	1	11	68	1.27
3393275--3393321	23	2.1	23	88	4	69	17	29	21	31	1.96
3396525--3396613	30	3.0	30	91	0	142	20	33	30	15	1.94
3406731--3406757	14	1.9	14	100	0	54	51	0	14	33	1.43
3408278--3408311	14	2.5	14	95	4	61	14	0	35	50	1.44
3417552--3417585	9	3.4	10	88	12	52	73	0	2	23	0.97
3417555--3417610	27	2.1	27	86	0	76	64	1	1	32	1.14
3418433--3418492	19	3.0	20	85	9	79	31	5	0	63	1.16
3418433--3418492	10	6.0	10	82	7	68	31	5	0	63	1.16
3421794--3421849	27	2.1	26	83	9	69	28	26	10	33	1.90
3422798--3422925	61	2.1	61	100	0	256	35	22	3	39	1.70
3425975--3426018	22	2.0	22	81	0	52	38	9	18	34	1.82
3429402--3429444	12	3.6	12	93	0	77	32	32	25	9	1.88
3429402--3429450	24	2.0	24	96	0	89	30	28	28	12	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3435547--3435595	20	2.4	22	83	12	61	36	10	4	48	1.56
3438122--3438154	17	1.9	17	88	11	50	39	0	12	48	1.40
3438135--3438176	13	3.3	13	86	3	50	45	0	7	47	1.30
3438144--3438178	13	2.7	13	90	0	52	48	0	2	48	1.16
3439569--3439602	15	2.2	16	89	5	52	67	5	0	26	1.13
3441743--3441792	19	2.6	19	84	12	66	72	4	14	10	1.26
3448389--3448447	27	2.2	27	87	0	91	37	15	22	25	1.93
3448497--3448563	27	2.4	28	73	14	68	31	14	26	26	1.95
3450628--3450653	11	2.4	11	100	0	52	50	7	42	0	1.31
3451309--3451344	3	12.0	3	87	0	54	36	0	2	61	1.11
3456895--3456945	14	3.6	14	74	7	50	68	0	13	17	1.21
3456934--3456967	16	2.1	16	88	5	50	76	5	14	2	1.09
3463426--3463992	126	4.5	125	83	2	636	30	15	22	31	1.95
3463424--3463992	251	2.3	251	83	2	705	30	15	22	31	1.95
3467133--3468422	21	59.8	21	80	7	1244	25	1	29	44	1.61
3467138--3467204	29	2.3	29	87	7	93	26	1	34	37	1.66
3467166--3468423	22	58.5	22	80	8	1051	25	1	29	44	1.61
3467133--3468422	43	29.9	42	81	6	1244	25	1	29	44	1.61
3467492--3467590	7	14.3	7	68	17	55	24	1	29	45	1.60
3468705--3468767	21	3.0	21	85	0	81	6	23	36	33	1.80
3472133--3472175	18	2.4	18	84	0	59	46	9	27	16	1.77
3472943--3472980	20	1.9	20	84	10	51	55	7	2	34	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3480643--3480694	27	1.9	27	88	0	77	28	38	21	11	1.88
3480413--3482634	103	21.6	103	99	0	4300	31	29	17	22	1.97
3486602--3486646	15	3.0	15	93	0	72	37	26	0	35	1.57
3486602--3486646	5	9.0	5	85	0	63	37	26	0	35	1.57
3487911--3488255	37	9.2	36	80	8	336	31	14	15	38	1.88
3487902--3488255	75	4.7	75	87	0	458	31	14	15	37	1.88
3487915--3488255	112	3.0	110	81	7	353	31	14	15	37	1.88
3492043--3492159	62	1.9	59	86	5	162	42	3	3	50	1.36
3492106--3492164	17	3.6	17	73	15	52	49	3	0	47	1.18
3495485--3495584	45	2.2	45	90	0	155	35	20	17	28	1.94
3496163--3496219	25	2.2	25	81	9	62	63	3	3	29	1.28
3496202--3496256	17	3.1	18	74	12	51	61	1	1	34	1.17
3496995--3497034	21	1.9	21	100	0	80	57	0	0	42	0.98
3497023--3497083	11	5.9	11	71	21	51	59	0	1	39	1.08
3497008--3497088	40	2.0	41	95	2	146	61	0	1	37	1.04
3504253--3504339	19	4.6	20	72	20	53	58	0	0	41	0.98
3504263--3504295	11	3.0	11	91	8	50	57	0	0	42	0.98
3504240--3504352	21	5.1	21	69	21	79	54	0	0	43	1.12
3504286--3504376	29	3.2	28	69	16	71	51	3	0	45	1.17
3504253--3504381	56	2.3	57	81	9	156	53	3	0	43	1.16
3504676--3504837	77	2.1	77	100	0	324	41	9	7	41	1.66
3505911--3505939	15	1.9	15	100	0	58	6	41	10	41	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3519777--3519823	21	2.2	21	85	7	60	42	0	0	57	0.98
3520006--3520070	31	2.2	31	83	5	80	43	10	9	36	1.72
3520110--3520153	20	2.1	21	83	4	54	43	6	2	47	1.42
3522924--3522956	16	2.1	16	100	0	66	24	24	6	45	1.75
3523824--3524109	149	1.9	149	79	8	323	41	5	19	32	1.76
3540466--3540503	10	3.6	11	86	6	53	0	18	0	81	0.69
3540467--3540509	14	3.1	13	83	12	50	0	18	0	81	0.69
3542831--3542860	12	2.5	12	94	0	51	36	10	0	53	1.35
3547906--3547937	12	2.7	12	95	0	55	37	9	0	53	1.34
3548351--3548375	6	4.2	6	100	0	50	48	0	0	52	1.00

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