genome.fa.s14.2.7.7.80.10.50.1000.35.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  35  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)
10216876--10216908	2	16.5	2	100	0	66	0	48	0	51	1.00
10216908--10216937	2	15.5	2	93	6	53	0	0	50	50	1.00
10220009--10220158	79	1.9	79	100	0	300	32	6	4	57	1.44
10233970--10234099	50	2.6	50	86	6	176	23	16	28	30	1.97
10234599--10234654	26	2.2	26	100	0	112	30	7	26	35	1.83
10236142--10236194	26	2.0	26	85	7	72	39	22	13	24	1.90
10241454--10241494	23	1.9	21	85	14	57	53	0	21	24	1.46
10241826--10241875	15	3.3	15	82	0	73	36	2	12	50	1.51
10242511--10242551	19	2.2	19	87	12	59	46	0	24	29	1.53
10243620--10243683	31	2.1	31	93	0	110	23	23	15	37	1.93
10243898--10244752	23	37.1	23	99	0	1683	30	21	21	26	1.99
10244803--10244869	20	3.3	20	93	0	116	32	20	10	35	1.87
10244803--10244858	11	5.5	11	71	16	57	32	19	10	37	1.86
10244906--10244953	25	2.0	24	83	4	60	22	16	25	35	1.95
10245965--10246003	21	1.9	21	89	5	62	48	0	33	17	1.48
10252491--10252554	31	2.1	31	90	0	101	25	23	14	37	1.92
10252762--10252842	24	3.4	24	87	5	119	27	23	19	29	1.98
10252769--10252841	23	3.1	23	90	2	110	28	21	20	28	1.98
10252955--10253002	25	1.9	25	91	0	78	25	14	25	35	1.94
10259247--10259287	23	1.9	21	85	14	57	53	0	21	24	1.46
10259617--10259666	15	3.3	15	78	10	66	38	2	10	50	1.48
10260105--10260180	27	2.7	27	84	13	93	19	2	36	40	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10260281--10260321	19	2.2	19	87	12	59	46	0	24	29	1.53
10262225--10262266	18	2.3	18	95	0	75	26	21	23	28	1.99
10262283--10262479	109	1.8	109	84	0	268	30	16	13	39	1.87
10262483--10262619	31	4.4	31	84	6	168	27	27	18	26	1.98
10262483--10262619	63	2.2	63	86	2	186	27	27	18	26	1.98
10281615--10281678	32	2.0	32	100	0	128	28	6	15	50	1.68
10294442--10294723	129	2.2	129	90	0	438	30	18	20	30	1.96
10294571--10295220	175	3.7	175	94	1	1063	31	18	21	28	1.97
10294751--10294992	131	1.9	129	79	8	276	29	20	20	29	1.98
10294398--10295133	304	2.4	300	81	6	716	30	18	21	28	1.97
10308431--10308475	17	2.7	16	80	10	54	68	4	0	26	1.08
10310132--10310170	3	14.3	3	84	15	50	74	0	25	0	0.82
10315410--10315449	20	2.0	20	95	0	71	30	10	12	47	1.74
10319346--10319399	13	4.1	13	76	11	56	44	5	0	50	1.25
10321761--10321795	18	1.9	18	88	11	54	31	0	5	62	1.18
10326388--10326431	21	2.2	20	83	4	52	29	6	9	54	1.58
10328903--10328935	5	7.0	5	96	3	52	42	15	0	42	1.46
10335517--10335550	14	2.4	14	85	14	52	50	0	0	50	1.00
10336210--10336256	17	2.8	17	75	15	53	42	2	0	55	1.12
10338926--10338954	14	2.1	14	100	0	58	51	6	6	34	1.55
10339534--10339600	31	2.1	32	91	2	109	19	4	7	68	1.31
10350119--10350171	7	7.6	7	97	0	88	22	0	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10351799--10351866	33	2.1	30	82	15	75	39	1	2	55	1.24
10364213--10364242	2	15.0	2	100	0	60	50	0	50	0	1.00
10367399--10367429	15	2.1	15	100	0	62	38	29	12	19	1.89
10367490--10367551	29	2.1	30	82	11	76	35	17	8	38	1.80
10368537--10368568	8	3.8	9	88	12	50	68	0	0	31	0.90
10378386--10378480	47	2.0	48	95	2	174	37	14	14	32	1.87
10378751--10378779	14	2.1	14	100	0	58	37	13	13	34	1.85
10380912--10380986	26	2.7	29	75	14	84	61	2	0	36	1.10
10380997--10381047	25	2.0	26	92	3	86	56	1	1	39	1.22
10381323--10381353	15	2.1	15	93	0	53	6	38	3	51	1.44
10384584--10384641	24	2.4	24	94	0	98	53	6	8	31	1.58
10386878--10387018	55	2.7	54	83	13	165	48	15	7	28	1.71
10388086--10388265	42	4.3	42	92	0	290	27	21	21	30	1.98
10390730--10390837	43	2.5	43	87	1	146	51	10	9	28	1.66
10395713--10395780	33	2.1	33	97	0	127	42	19	5	32	1.75
10395717--10395789	33	2.2	33	90	2	112	41	17	5	35	1.73
10396333--10396416	40	2.1	40	84	8	109	36	1	0	61	1.04
10398571--10398618	25	1.9	25	87	8	71	43	2	4	50	1.33
10399945--10399973	14	2.0	15	93	6	51	48	13	13	24	1.79
10399944--10399985	17	2.7	15	82	17	50	59	11	9	19	1.59
10406760--10406831	35	2.1	35	100	0	144	18	40	5	36	1.74
10408719--10408769	26	2.0	26	88	7	77	25	11	35	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10410766--10410834	29	2.3	30	80	9	79	57	1	5	34	1.31
10414545--10414581	5	7.4	5	93	0	65	78	0	18	2	0.87
10415265--10415303	21	1.9	20	84	5	51	64	15	5	15	1.46
10416279--10416341	33	2.0	33	84	6	85	44	1	0	53	1.10
10416838--10416899	30	2.1	30	90	0	97	14	29	14	41	1.85
10417618--10417841	117	1.9	117	83	1	288	27	17	23	30	1.97
10422837--10422908	26	2.7	26	85	6	83	52	2	2	41	1.30
10429949--10429988	18	2.2	19	86	4	55	57	2	5	35	1.34
10431936--10432573	90	7.1	90	96	0	1105	25	24	24	25	2.00
10433732--10433845	51	2.2	51	93	0	183	28	31	19	21	1.97
10433888--10433935	21	2.3	21	92	0	78	45	12	37	4	1.61
10440009--10440042	18	1.9	17	88	5	50	50	8	35	5	1.58
10458972--10459049	41	1.9	41	84	5	104	37	21	0	41	1.54
10462603--10462871	135	2.0	135	94	0	475	32	22	13	31	1.93
10474619--10474753	42	3.2	42	64	14	114	37	28	6	28	1.82
10474613--10474782	85	2.0	85	97	0	322	37	26	7	28	1.84
10485344--10485406	26	2.4	26	84	5	74	31	25	28	14	1.95
10486945--10486995	13	3.9	13	94	0	93	39	27	9	23	1.86
10491018--10491862	65	13.0	65	100	0	1690	32	24	16	26	1.96
10491933--10492400	96	4.9	95	82	5	489	22	21	24	32	1.98
10513704--10513736	12	3.0	11	91	8	50	42	0	9	48	1.35
10516607--10516755	42	3.5	42	81	9	169	24	17	26	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10530611--10530699	45	2.0	44	91	2	142	30	22	10	37	1.87
10535652--10535704	24	2.2	24	89	3	79	43	1	3	50	1.30
10546829--10546884	18	3.1	18	76	10	60	41	1	1	55	1.21
10547077--10547172	32	2.9	31	67	11	75	38	4	3	54	1.36
10555528--10555561	16	2.1	17	88	5	52	23	2	0	73	0.97
10558814--10558893	42	1.9	42	85	10	110	45	3	1	50	1.28
10564085--10564408	81	4.0	81	99	0	639	38	4	9	47	1.58
10565324--10565376	23	2.4	23	75	6	56	52	7	11	28	1.64
10565600--10565669	26	2.6	27	78	12	72	65	1	2	30	1.15
10565919--10565969	27	2.0	27	81	14	63	56	7	3	31	1.46
10579110--10579301	105	1.8	105	81	2	242	27	23	14	34	1.93
10580626--10580690	32	2.0	32	96	0	121	29	12	6	52	1.63
10599970--10600014	19	2.3	20	92	7	83	53	8	15	22	1.69
10602246--10602299	25	2.2	25	80	9	58	74	7	1	16	1.14
10611320--10611380	32	1.9	32	83	12	81	44	4	1	49	1.33
10620727--10620777	14	3.8	13	79	10	59	21	1	1	74	1.02
10620864--10620939	37	2.0	39	82	5	93	30	9	2	57	1.43
10622326--10622366	11	3.5	11	87	9	55	82	0	17	0	0.66
10623203--10623245	13	3.6	12	81	18	54	72	0	13	13	1.13
10623202--10623245	23	1.9	23	90	9	72	72	0	13	13	1.12
10623210--10623243	17	2.0	17	88	0	50	76	0	11	11	1.02
10635213--10635790	44	13.2	43	64	12	165	25	24	24	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10635199--10635820	263	2.4	263	87	1	888	25	24	25	24	2.00
10635199--10635820	88	7.1	88	87	0	852	25	24	25	24	2.00
10636044--10636184	44	3.2	44	83	6	144	29	24	19	26	1.98
10641298--10641379	27	2.8	28	87	10	103	15	23	30	30	1.96
10641399--10641451	27	1.9	28	92	3	90	20	20	30	28	1.98
10641287--10641487	104	1.9	105	90	1	323	22	19	27	29	1.98
10643201--10643269	27	2.5	26	76	23	79	44	1	1	52	1.19
10643201--10643266	7	8.6	7	76	18	53	43	1	1	53	1.19
10643211--10643279	32	2.2	32	79	7	79	47	1	2	47	1.25
10645144--10645194	13	3.9	13	77	10	59	37	0	1	60	1.08

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