genome.fa.s14.2.7.7.80.10.50.1000.17.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  39383930

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   

This is table  17  of  126  ( 15042 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)
4870468--4870749	115	2.5	114	88	2	395	26	18	21	32	1.97
4870113--4871005	378	2.4	376	94	1	1538	27	19	20	32	1.97
4871593--4871632	21	1.9	21	94	0	71	37	15	10	37	1.80
4871606--4871683	34	2.3	34	95	0	138	29	12	14	43	1.82
4873174--4873199	12	2.2	12	100	0	52	30	15	0	53	1.42
4875111--4875179	21	3.3	21	81	0	84	34	21	42	1	1.62
4875164--4875203	12	3.3	12	92	0	62	42	17	37	2	1.63
4875616--4875928	42	7.4	42	83	7	334	27	21	20	30	1.98
4875617--4875928	83	3.7	83	83	10	341	27	21	20	30	1.98
4875618--4875928	125	2.4	126	86	5	414	27	21	20	30	1.98
4879729--4879819	43	2.1	43	87	2	130	35	10	9	43	1.73
4880064--4880094	16	1.9	16	93	0	53	48	0	3	48	1.17
4880092--4880296	42	4.8	43	84	5	238	22	17	32	28	1.96
4880366--4880410	22	2.1	21	91	4	72	42	28	17	11	1.84
4880648--4880877	33	7.0	33	76	2	174	33	28	16	20	1.95
4880648--4880877	66	3.5	66	77	3	212	33	28	16	20	1.95
4880713--4880974	99	2.6	99	82	1	301	37	26	15	20	1.92
4883739--4883792	26	2.1	26	86	6	74	64	0	0	35	0.94
4883753--4883781	15	1.9	15	100	0	58	62	0	0	37	0.96
4883741--4883811	38	1.9	37	88	5	108	63	1	1	33	1.12
4886984--4887058	29	2.5	30	78	4	80	48	6	6	38	1.56
4886988--4887059	31	2.4	29	76	4	72	45	6	6	40	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4889256--4889382	65	2.0	65	90	6	204	37	10	13	38	1.79
4894768--4894825	28	2.2	24	75	18	62	65	0	0	34	0.93
4894768--4894813	24	1.9	24	82	8	58	67	0	0	32	0.91
4897330--4897364	17	1.9	19	88	11	56	20	8	11	60	1.57
4902891--4902936	23	2.0	23	95	0	83	47	6	0	45	1.28
4902893--4902942	23	2.2	23	88	0	73	52	8	0	40	1.31
4915600--4915757	78	2.0	78	97	2	300	34	13	17	34	1.89
4919987--4920267	83	3.4	83	95	2	483	38	4	8	48	1.55
4923927--4923985	24	2.5	24	88	5	93	20	5	25	49	1.69
4924053--4924112	27	2.2	27	82	11	70	20	25	25	30	1.99
4924100--4924153	26	2.1	26	85	0	72	20	18	22	38	1.93
4924156--4924370	32	6.7	32	80	5	186	21	20	20	36	1.95
4924153--4924370	96	2.3	97	74	8	212	21	21	20	36	1.95
4933810--4933838	5	6.0	5	92	8	51	62	0	37	0	0.96
4935186--4935243	22	2.6	22	84	7	73	43	17	3	36	1.66
4935199--4935277	21	3.8	19	80	12	77	39	16	7	36	1.77
4935233--4935276	21	2.1	21	100	0	88	38	13	9	38	1.77
4941305--4941695	98	4.0	98	98	0	755	35	25	10	28	1.89
4941977--4942001	9	2.8	9	100	0	50	68	8	0	24	1.16
4943026--4943080	19	3.0	19	92	5	87	38	16	7	38	1.76
4943034--4943087	19	2.8	19	94	0	90	35	16	11	37	1.84
4948821--4948875	3	18.0	3	75	17	51	34	1	3	60	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4948821--4948859	14	2.8	14	88	0	51	33	2	5	58	1.33
4948793--4948875	22	3.7	22	76	14	71	32	2	4	60	1.31
4956488--4956547	30	2.0	30	86	0	84	45	5	21	28	1.73
4958619--4958652	17	2.0	17	88	0	50	38	2	8	50	1.49
4962077--4962120	24	2.0	24	82	13	58	59	4	13	22	1.53
4964999--4965042	5	9.2	5	81	18	58	40	0	0	59	0.98
4965000--4965042	19	2.3	19	92	8	70	41	0	0	58	0.98
4965047--4965092	14	3.1	14	84	6	56	73	4	17	4	1.15
4965055--4965112	25	2.3	25	77	16	66	67	5	24	3	1.27
4965651--4965710	30	2.0	29	87	3	84	45	3	21	30	1.68
4965918--4965949	13	2.5	13	94	0	55	31	0	12	56	1.37
4966044--4966285	50	4.7	50	84	4	279	26	23	29	20	1.99
4966044--4966293	100	2.4	103	87	6	355	26	23	29	21	1.99
4978269--4978346	21	3.8	21	71	6	70	29	14	24	32	1.94
4983007--4983086	40	2.0	40	97	0	151	45	16	10	28	1.79
4991894--4991920	9	3.0	9	100	0	54	44	11	0	44	1.39
5002747--5002792	23	2.0	22	83	4	56	58	13	10	17	1.62
5010625--5010686	31	2.0	31	93	0	106	35	17	17	29	1.93
5015704--5015747	18	2.4	18	82	10	54	45	0	2	52	1.13
5015704--5015759	19	3.1	19	82	10	64	41	0	1	57	1.09
5017554--5017657	50	2.1	50	83	3	129	22	25	18	34	1.96
5017492--5017627	25	5.4	25	76	8	114	19	25	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5017665--5017713	25	2.0	25	88	8	73	18	26	20	34	1.95
5017668--5017722	25	2.2	24	81	12	58	21	23	23	30	1.99
5017677--5017746	25	2.8	25	75	16	65	25	24	20	30	1.99
5017997--5018079	41	2.0	41	95	0	148	37	10	18	33	1.85
5020400--5020424	13	1.9	13	100	0	50	92	0	8	0	0.40
5025252--5025276	8	3.1	8	100	0	50	52	24	0	24	1.48
5026149--5026173	10	2.5	10	100	0	50	40	0	0	60	0.97
5026466--5026513	21	2.2	23	78	14	57	39	4	0	56	1.19
5040716--5040795	40	2.0	40	95	0	142	35	7	22	35	1.82
5045747--5045844	48	2.0	48	98	0	187	35	8	10	45	1.68
5045949--5045976	14	2.0	14	100	0	56	28	14	21	35	1.92
5053942--5053985	22	2.1	21	83	8	54	31	0	9	59	1.29
5059169--5059297	32	4.0	32	100	0	258	50	0	12	37	1.40
5060500--5060563	22	3.0	21	77	13	60	51	10	12	25	1.72
5061759--5061794	18	1.9	19	88	5	56	33	8	0	58	1.28
5062553--5062582	15	1.9	16	93	6	53	86	0	0	13	0.57
5063715--5064124	167	2.4	167	90	2	633	41	17	15	24	1.88
5070827--5070867	13	3.2	12	89	6	55	14	4	0	80	0.87
5077283--5077327	22	2.0	22	82	0	54	66	2	2	28	1.15
5086114--5086810	191	3.6	191	84	5	861	31	16	18	32	1.94
5086657--5086951	155	1.9	154	85	6	409	33	14	19	32	1.92
5088426--5088466	9	4.6	9	88	8	57	34	2	0	63	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5088419--5088468	18	2.8	18	85	11	68	36	2	0	62	1.07
5095278--5095337	31	2.0	31	90	3	95	40	15	13	31	1.85
5097652--5097711	30	2.0	29	81	9	68	61	3	1	33	1.22
5114174--5114223	24	2.1	24	92	0	82	22	18	18	42	1.90
5115053--5115855	5	160.6	5	100	0	1606	60	0	0	39	0.97
5133976--5134041	29	2.3	29	87	10	91	45	13	3	37	1.59
5134562--5134604	4	10.8	4	100	0	86	25	0	25	48	1.51
5137919--5137988	30	2.3	29	85	9	88	44	5	10	40	1.62
5137940--5137996	29	1.9	29	92	3	96	45	8	8	36	1.66
5140842--5140880	18	2.2	18	95	0	69	25	23	5	46	1.73
5141429--5141831	221	1.8	219	83	7	528	22	17	20	39	1.92
5142701--5142747	22	2.1	22	92	0	76	42	10	6	40	1.65
5142700--5142739	10	3.8	10	81	12	53	47	10	2	40	1.50
5143824--5143887	32	2.1	29	83	16	76	62	3	3	31	1.26
5145010--5145052	15	2.7	15	82	10	50	60	0	0	39	0.97
5145013--5145064	16	3.3	16	78	5	61	53	0	0	46	1.00
5146645--5146704	31	1.9	31	86	0	84	38	10	13	38	1.78
5156895--5156966	34	2.1	35	82	7	85	55	4	5	34	1.42
5160538--5160599	4	15.5	4	89	0	52	38	25	11	24	1.88
5160538--5160599	12	5.2	12	82	0	61	38	25	11	24	1.88
5162409--5162827	209	2.0	210	94	1	743	21	17	22	37	1.94
5163674--5163704	14	2.1	15	94	5	55	32	0	6	61	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5168791--5168889	48	2.1	48	94	0	171	35	14	13	37	1.84
5169921--5170000	31	2.6	31	82	4	99	41	18	15	25	1.89
5169956--5170105	59	2.5	60	77	5	151	44	18	13	24	1.85
5174630--5174660	7	4.4	7	91	0	53	12	3	0	83	0.75
5174671--5174734	27	2.5	26	87	7	96	31	1	0	67	1.00
5174632--5174730	38	2.6	38	79	9	128	25	2	1	71	1.03
5176103--5176160	26	2.2	26	93	0	98	27	1	0	70	0.97
5176103--5176170	26	2.6	26	88	0	82	25	1	4	69	1.16
5181863--5181898	16	2.2	17	90	5	56	72	5	0	22	1.05
5191217--5191283	34	1.9	35	87	3	100	44	14	8	31	1.76

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