genome.fa.s5.2.7.7.80.10.50.1000.13.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  13  of  85  ( 10117 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)
4128728--4128780	24	2.2	24	80	9	63	41	20	22	15	1.89
4128792--4128938	48	3.0	51	74	10	135	35	21	23	19	1.96
4128770--4128923	25	6.3	25	65	18	74	35	22	23	18	1.96
4131786--4131850	31	2.1	31	82	5	78	50	7	7	33	1.59
4138182--4138358	87	2.0	88	98	1	347	33	7	5	52	1.54
4139694--4139781	45	2.0	45	86	4	124	39	5	2	52	1.38
4141077--4141197	9	12.9	9	67	17	68	67	2	4	25	1.21
4141108--4141199	19	4.9	19	76	11	77	68	2	5	23	1.22
4141079--4141198	28	4.3	26	77	15	89	67	2	4	25	1.21
4141106--4141199	38	2.5	38	78	14	97	68	2	5	24	1.22
4142648--4142675	3	9.3	3	100	0	56	32	0	0	67	0.91
4155731--4155764	10	3.8	9	88	11	52	79	0	0	20	0.73
4159230--4159326	48	2.0	48	100	0	194	31	10	18	39	1.84
4172193--4172253	31	2.0	31	83	6	79	26	14	27	31	1.95
4173319--4173343	12	2.1	12	100	0	50	48	8	0	44	1.32
4177798--4177875	11	7.0	11	79	13	72	24	30	1	43	1.62
4177984--4178030	24	2.0	24	95	4	87	25	19	21	34	1.96
4178929--4178953	7	3.6	7	100	0	50	28	0	12	60	1.32
4180106--4180337	25	9.6	25	73	11	191	40	0	13	45	1.44
4180060--4180337	95	2.9	95	93	0	475	39	0	13	46	1.46
4182779--4182896	25	5.1	23	71	19	93	40	16	13	29	1.86
4182779--4182896	46	2.5	47	82	6	141	40	16	13	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4184590--4184660	28	2.6	27	84	6	88	26	29	12	30	1.93
4186783--4187149	123	3.0	124	93	0	637	34	22	15	27	1.94
4193177--4193249	36	2.0	36	100	0	146	32	16	8	42	1.78
4196537--4196667	25	5.2	25	70	12	67	19	28	20	32	1.97
4199481--4199505	13	1.9	13	100	0	50	32	4	24	40	1.73
4209188--4209318	25	5.2	26	75	10	105	19	25	22	32	1.97
4210773--4210866	42	2.2	42	88	0	134	41	15	14	27	1.87
4210773--4210900	42	3.0	42	81	2	132	40	16	14	28	1.88
4221753--4221803	21	2.3	22	83	12	61	66	1	0	31	1.03
4222888--4223604	126	5.7	126	89	1	1046	25	19	21	33	1.97
4222888--4223604	251	2.8	252	89	2	1082	25	19	21	33	1.97
4223242--4223594	82	4.2	83	70	11	245	26	19	21	32	1.97
4222935--4223604	44	16.0	43	65	13	209	25	19	21	33	1.97
4223606--4223812	100	2.1	101	84	5	269	26	24	18	30	1.98
4225333--4225378	6	7.7	6	83	13	51	2	15	0	82	0.76
4230243--4230298	3	18.3	3	75	17	53	66	1	1	30	1.12
4230243--4230303	16	3.7	15	79	16	52	67	1	1	29	1.10
4240050--4240103	30	1.9	28	85	14	76	25	33	16	24	1.96
4240081--4240201	54	2.2	54	83	2	154	23	28	21	26	1.99
4247843--4247871	2	14.5	2	100	0	58	48	0	0	51	1.00
4248102--4248164	32	2.0	32	87	6	92	12	11	19	57	1.65
4248837--4248875	19	2.0	21	85	10	55	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4251417--4251461	23	2.0	23	100	0	90	22	22	17	37	1.94
4253223--4253356	45	3.0	45	64	12	112	33	13	17	35	1.89
4254004--4254124	57	2.1	58	86	4	174	28	20	5	45	1.74
4264267--4264320	25	2.2	25	89	0	81	42	16	18	22	1.89
4264275--4264331	25	2.3	25	100	0	114	35	17	22	24	1.95
4280764--4280997	43	5.5	43	91	0	326	35	25	17	20	1.95
4280761--4280997	86	2.8	86	88	0	368	35	25	17	21	1.95
4280742--4281029	86	3.3	85	83	5	337	34	23	19	21	1.96
4280741--4281029	129	2.2	127	80	6	321	34	23	20	21	1.96
4284088--4284389	44	6.9	43	67	12	105	26	22	19	31	1.98
4283944--4285264	132	10.0	131	87	3	1601	26	24	18	30	1.98
4284553--4284890	44	7.7	44	98	0	633	24	29	17	28	1.97
4319407--4319457	17	3.1	17	76	15	54	39	3	0	56	1.18
4320300--4320359	29	2.1	29	100	0	120	31	20	6	41	1.78
4327405--4327537	59	2.2	60	82	1	160	32	19	11	36	1.87
4328433--4328482	8	5.4	9	76	21	50	50	0	2	48	1.12
4328449--4328479	8	3.9	8	95	0	53	54	0	0	45	0.99
4346369--4346393	2	12.5	2	100	0	50	52	0	0	48	1.00
4351252--4351295	19	2.4	19	85	7	56	36	15	13	34	1.87
4351263--4351342	22	3.7	22	90	6	112	37	8	17	36	1.81
4351545--4351589	23	2.0	23	81	0	54	22	0	15	62	1.33
4355389--4355591	100	2.0	100	96	0	370	39	16	3	40	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4355940--4356078	37	3.5	40	74	10	133	31	23	19	25	1.98
4365363--4365402	17	2.3	18	91	4	64	27	2	0	70	1.01
4365422--4365713	145	2.0	146	99	0	577	34	8	10	45	1.69
4369483--4369559	30	2.6	30	81	4	84	45	5	28	20	1.73
4369482--4369565	36	2.3	36	81	4	98	45	5	28	20	1.74
4369508--4369567	12	5.0	12	76	8	50	45	6	31	16	1.74
4369811--4369944	70	1.9	70	95	0	241	41	8	4	45	1.54
4379460--4379521	28	2.4	25	84	12	81	17	17	16	48	1.82
4380431--4380461	15	2.1	15	100	0	62	41	19	0	38	1.51
4381062--4381586	8	65.6	8	98	0	791	20	0	30	49	1.50
4381685--4381719	10	3.5	10	88	11	54	34	0	2	62	1.10
4382261--4382286	7	3.7	7	100	0	52	76	0	11	11	1.01
4382555--4382642	43	2.0	43	84	0	113	32	14	12	39	1.84
4384671--4384697	14	1.9	14	100	0	54	51	18	7	22	1.70
4386918--4386942	2	12.5	2	100	0	50	52	0	48	0	1.00
4395258--4395384	51	2.5	51	89	1	184	24	18	26	30	1.98
4397579--4397614	15	2.5	14	86	8	54	44	8	0	47	1.33
4400121--4400150	2	14.5	2	93	6	51	50	3	0	46	1.18
4401053--4401208	84	1.9	84	84	10	212	30	30	17	21	1.96
4401051--4401209	43	3.8	41	78	14	157	30	30	17	21	1.96
4403927--4403994	34	2.0	34	97	0	127	33	20	22	23	1.97
4405982--4406013	15	2.1	15	94	0	55	15	6	9	68	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4409579--4409641	3	21.7	3	88	3	85	74	0	25	0	0.82
4409579--4409641	21	3.1	21	95	4	112	74	0	25	0	0.82
4413882--4413931	20	2.5	20	83	6	57	50	18	12	20	1.78
4413789--4414066	136	2.0	136	100	0	556	41	18	10	29	1.83
4414018--4414066	20	2.5	20	83	6	55	48	18	12	20	1.79
4415319--4415352	16	2.1	16	88	5	50	8	0	14	76	1.01
4428496--4428527	16	2.0	16	100	0	64	18	31	18	31	1.95
4439852--4439891	9	4.2	10	84	12	57	17	2	0	80	0.83
4439849--4439894	18	2.7	18	86	6	60	23	2	0	73	0.94
4439852--4439891	18	2.2	19	90	4	64	17	2	0	80	0.83
4441194--4441219	13	2.0	13	100	0	52	15	7	7	69	1.35
4443788--4443846	25	2.4	25	100	0	118	23	6	15	54	1.65
4448751--4448809	28	2.0	31	83	9	79	50	5	0	44	1.24
4448941--4448979	20	2.0	20	100	0	78	30	10	0	58	1.31
4458659--4459439	44	18.0	43	68	14	232	29	20	22	27	1.98
4458659--4459425	216	3.5	216	91	0	1246	29	20	22	27	1.99
4462402--4462484	44	1.9	43	82	7	105	26	21	26	25	2.00
4473341--4473374	14	2.4	14	95	0	59	26	0	8	64	1.22
4486097--4486134	15	2.4	16	86	8	51	47	0	0	52	1.00
4486253--4486288	15	2.3	16	90	4	56	77	5	13	2	1.05
4486304--4486340	14	2.6	15	87	8	51	78	0	18	2	0.87
4486685--4486718	17	1.9	18	88	5	52	41	0	23	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4495290--4495496	43	4.9	43	84	1	256	31	27	15	25	1.96
4497738--4497795	29	2.0	29	96	0	107	13	25	44	15	1.83
4498627--4498664	11	3.5	11	82	13	51	21	0	0	78	0.74
4502638--4502908	134	2.0	135	99	0	535	35	17	15	30	1.91
4519477--4519518	22	1.9	22	85	0	57	76	2	9	11	1.12
4519494--4519526	16	2.1	16	94	0	57	78	6	12	3	1.04
4519926--4519959	17	1.9	18	88	5	52	41	0	23	35	1.55
4520261--4520333	37	2.0	36	83	2	92	43	0	23	32	1.54
4522279--4522378	42	2.4	42	94	0	173	37	15	28	20	1.92
4530669--4530725	29	1.9	30	92	3	98	70	1	1	26	1.07

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