genome.fa.s5.2.7.7.80.10.50.1000.14.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  14  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)
4545714--4545789	26	2.8	26	76	7	73	28	19	21	30	1.97
4549133--4549177	18	2.5	19	80	20	60	37	4	26	31	1.76
4556198--4556287	31	3.0	30	74	15	78	58	10	13	17	1.61
4557601--4557661	27	2.3	27	85	0	77	40	31	4	22	1.75
4562314--4562364	20	2.5	20	81	12	68	56	3	1	37	1.29
4562366--4562409	18	2.4	18	92	0	70	68	0	2	29	1.02
4569938--4570331	195	2.0	195	98	1	754	38	21	13	25	1.91
4571056--4571119	31	2.1	31	96	0	119	34	29	3	32	1.73
4580422--4580489	30	2.3	29	82	2	82	47	1	7	44	1.40
4584416--4584582	72	2.3	72	85	3	230	55	11	6	25	1.60
4585007--4585041	18	1.9	18	100	0	70	40	11	14	34	1.82
4590902--4591022	59	2.0	60	87	4	174	32	0	14	52	1.47
4591140--4591174	16	2.3	15	90	5	52	31	5	5	57	1.46
4592451--4592560	27	4.1	27	88	2	150	24	32	23	19	1.97
4592957--4592985	14	2.0	15	93	6	51	58	0	0	41	0.98
4593005--4593042	18	2.1	19	90	5	60	47	0	2	50	1.15
4600994--4601028	2	17.5	2	100	0	70	51	0	0	48	1.00
4601996--4602044	19	2.6	19	75	12	55	10	12	8	69	1.37
4604682--4604771	45	2.0	45	91	6	148	37	27	4	30	1.76
4604750--4604787	16	2.4	16	90	0	58	26	31	2	39	1.70
4616912--4616964	21	2.4	21	78	6	52	35	5	1	56	1.34
4620927--4620987	26	2.3	26	91	5	97	44	22	0	32	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4621390--4621471	36	2.3	36	85	6	114	36	25	7	30	1.83
4625527--4625564	17	2.2	17	95	0	67	44	5	21	28	1.73
4631219--4631807	131	4.5	131	91	0	919	30	20	25	23	1.99
4631970--4632574	301	2.0	302	99	0	1194	34	31	14	20	1.92
4636104--4636150	22	2.2	21	81	11	51	55	4	2	38	1.31
4636634--4636667	17	1.9	17	88	5	50	47	0	2	50	1.16
4638563--4638725	81	2.0	82	98	1	319	45	8	8	37	1.66
4639512--4639609	49	2.0	50	89	2	153	43	10	16	29	1.80
4653846--4653871	3	8.7	3	100	0	52	69	0	0	30	0.89
4655060--4655096	18	2.0	19	85	15	51	24	2	8	64	1.34
4655105--4655160	20	2.6	21	83	16	71	33	5	0	60	1.19
4655136--4655212	29	2.6	29	79	6	75	36	2	1	59	1.19
4655960--4655991	3	10.7	3	100	0	64	31	34	0	34	1.58
4656663--4656696	16	2.1	16	94	0	59	23	52	8	14	1.69
4658396--4658444	17	3.0	16	82	11	64	53	28	0	18	1.45
4659291--4659350	26	2.5	23	79	15	59	30	3	13	53	1.56
4659311--4659357	24	2.0	24	83	8	60	34	4	8	53	1.51
4660467--4660506	20	1.9	22	85	10	57	55	0	0	45	0.99
4662213--4662250	19	2.1	18	90	5	58	65	2	5	26	1.27
4664574--4665011	44	9.5	44	68	15	217	33	19	19	27	1.96
4664599--4664973	94	4.0	93	77	3	308	33	20	17	28	1.95
4664931--4665105	94	1.9	94	84	4	237	29	17	23	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4664793--4665141	138	2.5	138	82	3	364	30	19	20	28	1.97
4664511--4665191	232	2.9	228	73	10	583	31	19	20	28	1.97
4665126--4665238	50	2.3	50	84	6	149	30	13	21	34	1.91
4665143--4665255	50	2.3	50	83	6	122	33	14	20	31	1.92
4666492--4666531	21	1.9	21	85	10	55	15	20	17	47	1.83
4666691--4666731	16	2.5	17	80	11	50	29	12	2	56	1.49
4674966--4675003	16	2.3	16	86	4	58	55	23	2	18	1.55
4680018--4680127	49	2.2	49	80	0	139	27	20	24	28	1.99
4685324--4685579	136	1.9	136	96	0	476	40	12	8	39	1.72
4686134--4686294	86	1.9	86	86	0	232	39	19	18	22	1.93
4686134--4686315	86	2.1	86	84	0	229	39	20	18	22	1.93
4686157--4686380	86	2.6	86	80	0	223	40	20	16	23	1.91
4686134--4686415	43	6.6	43	74	0	186	40	20	17	22	1.92
4695714--4695800	43	2.0	43	82	6	104	29	17	13	39	1.88
4696661--4696693	13	2.5	13	90	9	50	51	0	3	45	1.16
4696684--4696716	17	1.9	18	88	11	52	42	9	0	48	1.35
4699517--4699924	54	7.6	54	82	3	450	38	22	17	22	1.93
4699517--4699925	81	5.1	80	81	6	445	38	22	17	22	1.93
4699517--4699925	27	15.3	26	82	4	392	38	22	17	22	1.93
4700084--4700138	26	2.1	26	89	0	83	21	20	21	36	1.95
4700246--4700306	28	2.2	27	91	2	95	22	22	22	31	1.99
4700271--4700339	33	2.1	34	86	2	95	21	23	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4711659--4711703	20	2.2	20	100	0	90	71	0	13	15	1.15
4713326--4713387	31	2.0	31	96	0	115	41	9	11	37	1.74
4718334--4718509	22	7.6	22	76	17	160	26	14	15	43	1.85
4718302--4718554	47	5.4	46	86	5	294	29	14	15	41	1.86
4724338--4724417	22	3.5	22	79	17	90	30	10	15	45	1.78
4724392--4724450	31	1.9	31	96	0	109	32	10	11	45	1.74
4724345--4724497	78	2.0	78	96	0	279	29	9	14	46	1.76
4724423--4724558	25	5.8	22	70	20	71	27	12	15	44	1.82
4724423--4724543	47	2.6	47	86	1	154	28	11	15	44	1.81
4724471--4724577	46	2.3	46	82	6	117	28	14	15	40	1.88
4728036--4728066	3	10.3	3	92	0	53	64	35	0	0	0.94
4736399--4736445	2	24.0	2	91	4	78	48	0	2	48	1.13
4737199--4737363	43	3.8	44	73	7	126	30	25	18	25	1.98
4746539--4746568	2	15.0	2	92	0	51	46	0	3	50	1.18
4747322--4747486	43	3.8	44	73	7	126	30	25	18	25	1.98
4749499--4749550	20	2.5	21	81	15	63	25	5	3	65	1.32
4759017--4759062	14	3.2	14	77	17	58	2	54	0	43	1.12
4766328--4766420	23	4.0	23	84	0	123	39	21	17	21	1.92
4767042--4767079	19	2.0	19	100	0	76	57	10	5	26	1.53
4767355--4767406	27	2.0	25	85	14	70	5	17	5	71	1.26
4767405--4767431	14	1.9	14	100	0	54	22	11	0	66	1.22
4771442--4771495	16	3.2	16	89	5	81	1	51	0	46	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4773334--4773379	6	7.5	6	92	2	74	15	0	13	71	1.14
4773315--4773389	6	13.6	5	86	10	62	14	1	9	74	1.12
4773333--4773389	18	3.2	18	87	7	82	15	0	10	73	1.09
4774674--4774721	24	2.0	24	100	0	96	29	20	16	33	1.95
4776365--4776433	19	3.6	19	76	9	61	57	1	0	40	1.07
4776733--4776773	21	2.0	21	95	0	73	56	12	9	21	1.65
4779403--4779453	20	2.7	18	80	14	57	31	5	3	58	1.40
4779403--4779453	19	2.7	19	82	14	61	31	5	3	58	1.40
4779486--4779542	10	5.7	10	81	6	53	28	1	3	66	1.18
4779598--4779644	19	2.5	19	77	19	53	31	6	4	57	1.43
4786781--4786973	96	2.0	96	90	2	307	49	4	12	33	1.62
4799717--4799783	33	2.0	33	97	0	125	31	23	10	34	1.89
4827516--4827597	31	2.7	31	84	7	105	32	9	10	46	1.72
4827919--4827971	23	2.2	24	83	3	63	62	1	1	33	1.17
4854981--4855027	21	2.2	22	92	3	78	23	17	36	23	1.95
4857879--4857915	16	2.3	16	100	0	74	37	5	35	21	1.77
4857895--4857992	44	2.2	46	92	3	164	27	4	31	36	1.76
4858144--4858182	17	2.5	15	84	15	60	61	0	0	38	0.96
4858149--4858182	17	2.0	17	100	0	68	58	0	0	41	0.98
4858215--4858254	20	2.0	21	85	5	55	60	5	0	35	1.19
4861695--4861756	25	2.5	25	97	0	115	41	19	9	29	1.83
4861998--4862031	12	2.8	12	100	0	68	61	14	23	0	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4863813--4863906	45	2.1	45	86	6	127	18	8	56	17	1.65
4880809--4880846	20	1.9	20	88	0	58	18	13	0	68	1.21
4884011--4884058	13	3.4	14	77	13	53	54	0	0	45	0.99
4884490--4884539	10	5.1	10	79	11	50	52	4	0	44	1.20
4884492--4884539	19	2.5	20	79	3	53	52	4	0	43	1.20
4885669--4885761	40	2.3	40	88	3	134	38	20	19	21	1.93
4885823--4885887	32	2.0	33	84	3	87	30	27	0	41	1.56
4886978--4887023	18	2.4	18	85	10	56	45	0	6	47	1.28
4902855--4903212	100	3.6	100	90	3	555	29	20	23	25	1.99
4902872--4903233	50	7.3	50	69	4	246	30	20	24	25	1.99

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