genome.fa.s7.2.7.7.80.10.50.1000.15.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  15  of  79  ( 9388 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)
5026289--5026376	31	2.9	30	93	5	151	37	9	0	53	1.33
5028925--5028997	21	3.4	21	86	1	101	52	19	28	0	1.46
5031591--5031617	14	1.9	14	100	0	54	66	3	7	22	1.33
5033997--5034598	204	3.0	203	88	1	839	35	18	22	22	1.95
5033997--5034600	68	8.9	68	85	0	751	35	18	22	22	1.96
5036847--5036915	21	3.3	21	70	8	59	44	21	20	13	1.85
5036857--5036974	42	2.8	41	78	10	121	45	17	19	16	1.85
5049486--5049527	22	1.9	22	90	0	66	64	0	4	30	1.14
5049826--5049874	19	2.5	20	80	12	57	32	6	6	55	1.49
5053872--5053899	2	14.0	2	100	0	56	50	0	0	50	1.00
5058866--5058893	7	4.0	7	100	0	56	71	0	0	28	0.86
5063594--5063633	22	1.9	22	85	10	57	47	10	7	35	1.65
5063593--5063639	20	2.2	22	77	7	53	51	10	6	31	1.62
5067031--5067220	98	1.9	98	94	0	335	37	24	11	27	1.89
5067485--5067509	12	2.1	12	100	0	50	60	0	8	32	1.26
5067694--5067740	2	23.5	2	95	0	85	51	2	0	46	1.13
5069074--5069106	14	2.4	14	94	0	57	18	15	30	36	1.91
5078587--5078625	19	2.1	19	90	0	60	25	17	15	41	1.89
5085235--5085267	14	2.4	14	100	0	66	18	18	30	33	1.94
5088519--5088564	23	2.1	22	84	15	60	41	8	10	39	1.71
5091423--5091495	36	2.0	36	92	5	121	20	24	19	35	1.95
5093768--5093822	3	17.3	3	85	10	65	27	36	0	36	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5093824--5093853	15	2.0	15	93	0	51	33	50	0	16	1.46
5104432--5105527	547	2.0	548	99	0	2185	35	13	12	39	1.82
5107550--5108217	113	5.9	114	74	5	489	30	19	23	26	1.98
5107664--5108102	228	1.9	225	79	4	479	31	19	23	25	1.98
5107642--5108298	340	1.9	340	81	5	790	30	19	22	27	1.98
5108392--5108764	90	4.1	90	98	0	721	27	3	26	43	1.70
5108733--5108851	7	17.0	7	67	16	50	18	1	39	40	1.61
5108909--5108936	14	2.0	14	100	0	56	14	0	35	50	1.43
5115008--5115050	16	2.6	17	81	3	52	25	0	2	72	0.97
5115946--5115995	24	2.0	24	85	11	66	58	2	0	40	1.10
5116130--5116174	18	2.4	18	82	14	56	37	0	4	57	1.19
5116099--5116174	43	1.9	38	82	17	93	36	1	5	56	1.30
5129674--5129925	126	2.0	127	97	0	479	59	7	13	19	1.57
5136446--5136509	26	2.5	27	82	12	73	48	0	7	43	1.32
5141796--5141845	26	1.9	26	87	0	73	30	0	4	66	1.10
5144390--5144419	14	2.1	14	100	0	60	80	0	20	0	0.72
5147848--5147903	28	2.0	28	93	6	96	55	7	3	33	1.45
5150667--5150717	25	2.1	24	82	13	61	39	5	7	47	1.57
5152192--5152238	24	2.0	23	84	16	60	51	2	2	44	1.25
5154245--5154310	9	7.4	9	73	20	50	56	1	4	37	1.29
5158563--5158596	1	34.0	1	93	0	59	0	97	0	2	0.19
5171189--5171222	17	2.1	16	88	5	50	20	2	2	73	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5175141--5175175	17	2.1	17	89	10	54	45	2	0	51	1.16
5176430--5176454	4	6.2	4	100	0	50	76	0	0	24	0.80
5177749--5177861	19	5.8	19	84	4	154	39	10	15	34	1.81
5177750--5177855	40	2.7	40	91	2	171	39	11	14	34	1.81
5183959--5184016	29	2.0	29	100	0	116	24	20	13	41	1.89
5184950--5185151	44	4.7	41	74	14	142	28	19	23	28	1.99
5185203--5185640	44	10.0	44	75	8	356	28	16	26	28	1.97
5185202--5185644	132	3.4	130	93	2	753	28	16	26	28	1.97
5185921--5185997	19	3.8	19	74	12	82	38	10	15	35	1.82
5188563--5188598	3	12.0	3	100	0	72	66	0	0	33	0.92
5189765--5189807	3	14.3	3	90	0	68	62	2	2	32	1.20
5191992--5192293	149	2.0	150	99	0	597	42	7	9	40	1.66
5193677--5193730	27	2.0	27	82	7	65	44	1	0	53	1.11
5195728--5195760	3	11.0	3	93	0	57	33	3	0	63	1.10
5195769--5195827	22	2.7	21	84	10	66	35	8	3	52	1.49
5199319--5199355	17	2.1	18	90	5	58	29	24	0	45	1.53
5200075--5200125	11	4.7	10	83	13	50	86	7	0	5	0.71
5200075--5200113	17	2.3	17	90	0	60	84	10	0	5	0.76
5200081--5200113	6	5.7	6	85	7	50	84	12	0	3	0.72
5200072--5200124	17	2.9	17	76	18	54	86	7	0	5	0.69
5200143--5200181	10	3.9	10	83	12	53	82	0	17	0	0.68
5200143--5200181	14	3.0	13	82	14	53	82	0	17	0	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5200151--5200181	16	1.9	16	93	0	53	83	0	16	0	0.64
5201454--5201680	44	5.2	44	68	17	157	25	20	25	27	1.99
5201405--5201986	87	6.7	86	90	1	609	28	22	23	24	1.99
5201674--5201984	42	7.2	42	63	18	118	29	24	22	23	1.99
5212532--5212592	24	2.5	25	82	10	74	4	32	4	57	1.41
5214176--5214208	11	2.8	12	90	9	50	51	0	0	48	1.00
5217414--5217461	17	2.9	16	79	14	53	25	0	6	68	1.12
5217760--5218403	114	5.7	112	80	2	642	33	16	21	28	1.95
5217870--5218404	228	2.3	228	89	0	829	34	16	21	26	1.95
5217870--5218404	114	4.7	114	84	1	680	34	16	21	26	1.95
5218695--5218745	22	2.4	21	90	6	77	9	0	45	45	1.36
5220522--5220551	15	1.9	16	93	6	53	6	6	16	70	1.31
5222265--5222329	30	2.1	31	85	2	87	32	9	1	56	1.40
5222412--5222467	20	3.0	18	80	12	51	23	0	3	73	0.99
5227625--5227728	13	7.8	12	72	16	55	75	5	8	10	1.20
5228582--5228663	7	12.0	7	80	12	91	68	1	17	13	1.28
5228583--5228660	13	6.3	13	76	16	85	69	1	16	12	1.26
5228579--5228647	22	3.2	22	89	8	115	69	0	17	13	1.19
5228583--5228653	6	11.7	6	78	15	67	69	0	16	14	1.20
5228582--5228660	22	3.9	20	91	5	106	69	1	16	12	1.25
5229847--5229876	15	1.9	16	93	6	53	6	6	16	70	1.31
5234439--5234497	30	2.0	30	83	3	75	44	11	18	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5239056--5239561	95	5.4	95	83	3	546	35	16	18	29	1.93
5239056--5239472	190	2.2	191	88	0	620	35	16	18	29	1.93
5239427--5239828	44	9.0	44	78	8	371	34	17	18	29	1.94
5239471--5239645	95	1.8	95	86	4	255	34	18	19	28	1.95
5238922--5239784	139	6.2	140	77	9	616	34	16	19	29	1.93
5253148--5253189	21	2.0	21	86	4	59	35	16	9	38	1.81
5254273--5254435	57	2.7	59	80	11	152	53	3	1	41	1.26
5254402--5254448	23	2.1	22	84	11	60	63	2	0	34	1.06
5262433--5262463	2	15.5	2	100	0	62	51	0	0	48	1.00
5265190--5265218	3	9.7	3	100	0	58	0	31	0	68	0.89
5268994--5269056	27	2.3	27	83	0	81	25	38	20	15	1.92
5273350--5273410	25	2.3	26	75	13	63	36	3	1	59	1.24
5286101--5286126	2	13.0	2	100	0	52	50	0	0	50	1.00
5295449--5295529	27	3.0	28	87	5	114	30	22	28	18	1.97
5295603--5295672	19	3.7	19	86	3	106	35	10	0	54	1.34
5295608--5295678	37	1.9	37	97	0	133	38	11	0	50	1.38
5296017--5296085	19	3.7	19	86	5	106	53	0	10	36	1.35
5296160--5296237	27	2.9	27	85	7	106	17	29	23	29	1.97
5296161--5296246	27	3.2	26	85	4	102	18	26	23	31	1.97
5302007--5302052	20	2.3	19	82	10	56	67	2	2	28	1.14
5306573--5306883	110	2.9	110	87	2	432	34	19	16	30	1.93
5308972--5309139	83	2.0	84	98	1	329	51	10	4	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5314742--5314779	19	2.0	19	89	0	58	47	0	0	52	1.00
5314725--5314777	27	2.0	27	84	0	70	41	0	1	56	1.10
5316216--5316248	12	2.6	13	85	9	50	54	0	0	45	0.99
5316775--5316939	34	4.7	34	77	11	163	30	16	19	33	1.94
5316859--5316936	39	2.0	39	92	0	129	30	16	20	32	1.95
5318416--5318462	21	2.1	23	84	7	62	31	0	0	68	0.90
5320548--5320717	84	2.0	84	89	2	261	27	9	18	45	1.80
5327545--5327573	9	3.2	9	100	0	58	44	34	0	20	1.52
5329925--5331663	870	2.0	868	99	0	3460	30	15	8	45	1.77
5340689--5340740	24	2.2	24	85	0	68	53	9	3	32	1.51

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