genome.fa.s6.2.7.7.80.10.50.1000.94.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  94  of  109  ( 13028 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)
29898976--29899171	106	1.8	105	82	6	252	39	13	14	31	1.86
29904507--29904648	31	4.8	30	69	12	105	45	11	15	26	1.81
29904527--29904639	59	1.9	59	94	0	199	44	13	14	28	1.82
29906505--29906890	93	4.2	93	80	3	382	40	17	15	26	1.90
29906535--29906885	186	1.9	186	82	1	443	39	18	15	26	1.91
29920608--29920644	19	2.0	18	89	5	56	45	0	0	54	1.00
29920608--29920644	9	4.0	9	86	6	56	45	0	0	54	1.00
29922879--29923102	112	2.0	112	97	0	421	38	13	11	36	1.82
29929116--29929327	104	2.0	105	99	0	417	39	8	9	42	1.68
29933837--29933917	28	3.2	28	60	26	70	27	4	22	45	1.72
29933824--29933920	48	2.0	48	100	0	194	26	6	23	43	1.77
29939014--29939104	37	2.5	37	85	0	110	16	16	25	41	1.89
29942539--29942678	69	2.0	69	100	0	280	48	11	7	32	1.66
29943208--29943246	20	2.0	20	84	0	51	46	0	5	48	1.24
29947641--29947679	20	1.9	20	84	5	51	58	5	23	12	1.54
29954838--29954911	30	2.4	31	82	10	82	47	8	6	37	1.60
29977225--29977282	29	2.1	27	84	12	73	43	1	6	48	1.40
29977889--29977954	31	2.2	30	81	8	71	36	1	12	50	1.49
29980906--29980939	15	2.3	15	100	0	68	61	11	0	26	1.30
29983320--29983363	17	2.5	19	75	20	51	65	2	15	15	1.36
29984258--29984311	19	2.8	19	77	8	56	61	0	0	38	0.96
29987034--29987082	25	2.0	25	92	8	82	38	0	4	57	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29987032--29987087	25	2.4	23	81	18	71	37	0	3	58	1.15
29990238--29990286	22	2.2	22	85	7	64	71	2	2	24	1.07
29990974--29991021	15	3.1	15	77	11	51	14	0	31	54	1.41
29991122--29991344	96	2.3	97	82	4	247	40	3	16	39	1.65
29992782--29992830	25	2.0	25	92	8	82	38	0	4	57	1.18
29992780--29992835	25	2.4	23	81	18	71	37	0	3	58	1.15
29995986--29996034	22	2.2	22	85	7	64	71	2	2	24	1.07
29996724--29996771	15	3.1	15	77	11	51	14	0	31	54	1.41
29996855--29997191	171	2.0	171	100	0	674	38	5	16	39	1.72
29997043--29997271	96	2.4	97	80	4	250	39	3	17	39	1.67
30001190--30001224	18	2.1	17	89	10	54	42	0	28	28	1.56
30004723--30004748	7	3.7	7	100	0	52	57	15	0	26	1.38
30005914--30005990	11	7.0	11	73	10	68	46	2	25	24	1.65
30005916--30005974	21	2.8	20	82	10	64	44	3	27	25	1.70
30005914--30006000	11	8.1	10	76	17	54	47	2	25	25	1.64
30005972--30005999	12	2.3	12	100	0	56	50	0	28	21	1.49
30014172--30014197	4	6.5	4	100	0	52	26	0	23	50	1.50
30024357--30024424	34	2.0	33	94	2	118	44	7	14	33	1.73
30024445--30024507	31	2.0	31	84	6	83	50	9	12	26	1.71
30028282--30028352	31	2.4	29	83	4	88	49	11	2	36	1.53
30032530--30032578	18	2.6	19	83	6	64	61	4	2	32	1.26
30052712--30052748	18	2.1	18	89	0	56	51	5	13	29	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30054420--30054472	21	2.5	20	78	6	52	54	0	5	39	1.24
30058739--30058771	12	2.8	12	82	17	50	33	0	48	18	1.48
30081682--30081736	19	2.7	21	76	21	55	27	23	7	41	1.80
30083367--30083406	20	2.0	21	85	5	55	47	2	0	50	1.14
30088243--30088420	77	2.3	77	85	0	232	47	8	10	33	1.69
30088217--30088420	76	2.7	76	82	0	246	48	8	9	33	1.67
30088402--30088445	23	1.9	23	85	0	61	52	4	15	27	1.63
30095783--30095816	15	2.3	15	94	0	59	26	5	26	41	1.78
30107740--30107782	17	2.4	19	84	7	54	53	2	2	41	1.26
30107785--30107958	86	2.0	87	98	1	341	50	4	10	35	1.57
30121847--30121887	22	1.9	21	85	14	57	34	2	7	56	1.40
30127091--30127194	15	6.9	15	91	0	145	24	53	12	9	1.68
30139422--30139457	17	2.1	17	89	5	54	47	11	5	36	1.63
30139535--30139740	18	11.5	18	72	12	149	44	9	13	33	1.76
30139499--30139740	17	13.5	17	68	16	125	44	9	12	33	1.75
30139499--30139638	56	2.5	55	81	10	160	45	10	12	31	1.76
30140539--30140599	23	2.7	21	78	16	59	0	27	0	72	0.85
30140559--30140600	11	3.7	11	81	12	50	0	26	0	73	0.83
30140539--30140597	16	3.7	16	76	14	52	0	28	0	71	0.87
30140560--30140606	23	2.0	23	83	8	58	2	23	0	74	0.93
30141186--30141266	29	2.8	29	82	1	81	48	6	22	23	1.73
30145775--30145809	14	2.5	14	90	0	52	25	0	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30146016--30146073	30	2.0	29	86	3	80	24	18	6	50	1.72
30146100--30146175	7	11.1	7	72	16	61	73	1	25	0	0.91
30146096--30146165	13	5.5	13	77	9	65	72	1	25	0	0.92
30146124--30146176	17	3.2	17	76	15	65	71	0	28	0	0.86
30146100--30146182	20	4.1	20	71	22	75	73	1	25	0	0.90
30147204--30147271	18	3.6	19	74	7	59	35	16	5	42	1.72
30147210--30147252	17	2.4	18	84	7	52	34	18	6	39	1.78
30147330--30147427	21	5.1	20	77	15	89	40	7	10	41	1.66
30147353--30147388	17	2.1	17	94	0	63	38	2	11	47	1.54
30147367--30147427	20	3.0	20	80	17	72	44	9	11	34	1.74
30147394--30147498	36	2.9	36	83	9	126	35	10	9	44	1.71
30147348--30147501	19	8.4	19	70	16	83	40	7	9	42	1.67
30147316--30147463	19	7.8	19	71	17	85	35	8	10	45	1.67
30147394--30147498	35	2.9	36	83	9	117	35	10	9	44	1.71
30147409--30147465	16	3.4	16	73	19	53	33	10	10	45	1.73
30155709--30156793	85	13.7	75	84	6	789	26	17	22	33	1.96
30156024--30156576	85	6.6	85	92	2	859	26	18	23	32	1.97
30156532--30156796	75	3.5	74	86	4	372	30	16	21	32	1.95
30157034--30157059	5	5.2	5	100	0	52	19	0	0	80	0.71
30161814--30161912	34	2.9	35	73	11	87	43	21	6	29	1.76
30161925--30161971	20	2.3	20	88	3	67	31	12	19	36	1.89
30164168--30164199	16	2.0	16	93	0	55	46	18	15	18	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30168308--30168340	7	4.7	7	85	14	50	12	15	0	72	1.12
30168841--30168885	19	2.4	18	82	10	54	24	20	8	46	1.78
30169819--30169851	7	4.7	7	85	14	50	12	15	0	72	1.12
30170937--30171002	3	21.7	3	79	14	73	65	1	3	30	1.17
30170943--30171002	16	3.6	17	80	14	72	65	1	3	30	1.19
30172568--30172750	44	4.1	44	75	3	179	28	25	15	30	1.96
30172554--30172718	45	3.7	43	78	5	143	29	23	15	30	1.96
30172746--30173375	132	4.8	132	87	3	766	26	23	20	29	1.99
30172729--30173375	265	2.4	263	86	2	843	27	23	20	28	1.99
30173105--30173292	44	4.3	44	64	15	109	28	22	19	29	1.98
30173124--30173312	44	4.3	44	66	11	118	29	20	21	28	1.98
30179772--30179808	3	12.0	3	94	5	65	67	0	0	32	0.91
30185022--30185070	20	2.4	21	82	6	64	40	2	0	57	1.10
30190775--30190809	17	2.1	17	94	0	61	22	2	28	45	1.67
30195425--30195536	41	2.7	41	80	5	127	25	19	28	26	1.99
30195946--30196126	81	2.2	81	91	0	290	24	1	31	42	1.64
30196115--30196154	19	2.1	19	86	9	55	7	7	60	25	1.50
30196028--30196428	100	4.0	100	85	6	535	23	2	32	41	1.68
30196409--30196517	14	8.1	14	77	10	93	18	0	45	34	1.56
30196409--30196529	7	18.3	6	72	16	57	17	1	46	34	1.58
30196422--30196490	19	3.9	19	71	22	60	15	1	47	34	1.55
30196577--30196618	16	2.6	16	96	3	75	42	0	9	47	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30196881--30197086	84	2.5	84	79	4	202	30	14	19	35	1.91
30196975--30197344	84	4.4	84	87	3	498	29	16	21	31	1.96
30199030--30199069	21	1.9	21	100	0	80	17	15	0	67	1.23
30200024--30200321	43	7.0	43	85	1	393	30	18	26	23	1.98
30200024--30200321	128	2.3	128	86	1	400	30	18	26	23	1.98
30200024--30200321	85	3.5	86	85	1	402	30	18	26	23	1.98
30203020--30203051	2	16.0	2	93	0	55	50	3	0	46	1.17
30204549--30204608	4	15.0	4	96	0	111	25	1	25	48	1.61
30207701--30207879	85	2.1	86	97	2	344	54	7	3	34	1.46
30222392--30222449	14	4.1	14	70	20	50	41	0	0	58	0.98

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