genome.fa.s7.2.7.7.80.10.50.1000.38.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  38  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)
12401797--12401839	20	2.1	21	82	4	52	69	2	0	27	1.00
12404005--12404044	18	2.3	18	83	8	57	30	0	0	70	0.88
12407329--12407436	17	6.4	17	68	4	65	45	17	8	28	1.77
12407329--12407428	51	2.0	51	85	0	137	47	17	8	28	1.75
12423714--12423765	21	2.4	21	84	9	61	40	0	1	57	1.10
12423714--12423769	22	2.6	21	86	8	69	41	0	1	57	1.09
12424178--12424218	15	2.5	17	80	11	59	63	0	2	34	1.08
12435401--12435496	45	2.2	45	81	12	110	41	8	20	29	1.81
12439268--12439292	12	2.1	12	100	0	50	28	0	8	64	1.22
12440208--12440247	21	1.9	21	89	0	62	27	37	20	15	1.92
12440207--12440253	21	2.2	20	82	10	58	27	38	17	17	1.91
12440738--12440905	91	1.9	91	88	3	259	57	7	7	26	1.54
12446391--12446433	18	2.4	18	92	0	68	67	0	2	30	1.03
12446956--12446997	18	2.3	18	84	12	50	26	0	2	71	0.98
12457281--12457812	266	2.0	266	94	0	938	32	19	15	31	1.94
12462590--12462675	45	1.9	45	87	0	127	23	22	12	41	1.88
12464513--12464551	21	1.9	20	84	5	51	43	5	7	43	1.55
12464737--12464778	22	2.1	19	86	13	57	45	0	0	54	0.99
12464737--12464775	16	2.5	15	83	8	51	46	0	0	53	1.00
12466920--12467006	27	3.3	27	79	7	97	21	19	20	37	1.94
12466934--12467006	27	2.7	28	85	8	98	23	16	23	36	1.94
12468377--12468426	24	2.1	24	85	3	66	16	44	4	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12474735--12474777	23	2.0	22	83	16	56	53	6	0	39	1.28
12482987--12483053	20	3.5	20	64	15	59	26	17	20	34	1.96
12482975--12483052	38	2.1	38	100	0	156	29	17	17	34	1.94
12486820--12486917	33	3.0	33	80	0	124	45	18	20	15	1.85
12490276--12490322	19	2.5	20	76	20	55	57	2	34	6	1.36
12490282--12490317	18	1.9	19	88	5	56	61	2	33	2	1.25
12491961--12491985	11	2.3	11	100	0	50	16	8	36	40	1.77
12493045--12493086	21	2.0	21	95	0	75	40	0	21	38	1.53
12496968--12497313	51	6.9	50	77	7	310	25	17	27	29	1.98
12496972--12497154	101	1.8	100	93	1	321	24	18	27	30	1.98
12496968--12497314	151	2.3	151	87	2	482	25	17	27	29	1.98
12497939--12497972	17	2.1	16	88	5	50	32	2	0	64	1.08
12514492--12514526	7	5.0	7	92	0	61	31	0	54	14	1.40
12520789--12520822	17	2.0	17	88	0	50	26	11	8	52	1.67
12532006--12532112	53	2.0	53	98	0	205	31	23	16	28	1.96
12532291--12532322	16	2.0	16	93	0	55	25	15	0	59	1.36
12532452--12532544	46	2.1	43	82	9	107	32	21	18	27	1.97
12551543--12551670	66	1.9	66	88	3	195	25	22	21	30	1.99
12554986--12555014	12	2.3	13	94	5	51	20	6	6	65	1.40
12586034--12586210	33	5.4	33	79	0	165	18	23	14	43	1.87
12586034--12586208	66	2.7	66	80	1	208	18	24	14	43	1.87
12587806--12588097	50	5.9	50	75	4	216	22	28	20	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12587854--12588096	100	2.4	100	80	1	254	22	29	20	28	1.98
12594553--12594794	50	4.8	50	82	6	247	21	28	21	28	1.99
12594553--12594786	100	2.3	98	83	5	274	21	27	22	28	1.99
12600698--12600948	125	2.0	126	99	0	495	33	22	14	29	1.93
12614736--12614776	16	2.6	15	84	7	55	43	0	2	53	1.13
12615234--12615320	41	2.1	41	82	0	102	16	44	18	20	1.86
12618822--12618907	28	3.2	27	80	4	95	37	18	16	27	1.92
12622084--12622122	20	2.0	20	94	0	69	51	5	7	35	1.53
12634303--12634358	4	14.0	4	100	0	112	50	25	0	25	1.50
12635071--12635230	75	2.1	76	97	1	304	53	6	1	38	1.34
12644789--12644844	27	2.1	27	83	12	71	51	3	1	42	1.29
12644778--12644843	20	3.3	20	81	8	73	53	4	1	40	1.31
12645659--12645691	15	2.3	15	89	5	50	27	0	0	72	0.85
12648404--12648666	45	5.8	45	76	7	185	41	15	20	22	1.90
12648589--12648711	46	2.7	45	85	1	156	43	15	24	17	1.87
12648559--12648711	45	3.4	45	81	5	166	42	16	24	16	1.88
12651787--12651815	15	1.9	15	100	0	58	55	13	10	20	1.68
12662313--12662450	41	3.4	40	83	2	159	19	16	24	39	1.92
12668117--12668159	21	2.0	21	90	0	68	23	18	27	30	1.98
12669260--12669338	3	28.0	3	75	12	69	2	31	0	65	1.06
12669263--12669297	8	4.2	8	85	7	52	0	34	0	65	0.93
12669260--12669338	11	7.1	11	75	13	72	2	31	0	65	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12669254--12669338	14	6.1	14	72	13	68	3	31	0	64	1.10
12669254--12669319	25	2.6	25	83	4	80	4	31	0	63	1.14
12682479--12682536	24	2.4	24	82	0	62	34	3	1	60	1.24
12682730--12682871	59	2.4	59	78	11	162	49	11	14	23	1.77
12702115--12702161	22	2.1	23	84	11	62	65	6	2	25	1.27
12709591--12709624	17	1.9	18	94	5	61	52	14	2	29	1.56
12719756--12719815	30	2.0	30	83	0	75	15	28	30	26	1.96
12721580--12721778	85	2.4	85	84	5	237	45	11	12	31	1.77
12722383--12722420	20	1.9	20	94	0	67	50	5	5	39	1.48
12722387--12722436	20	2.5	20	83	0	55	52	6	8	34	1.55
12722610--12722698	32	2.6	34	91	8	137	52	0	12	34	1.39
12722639--12722698	19	3.2	19	80	4	86	50	0	11	38	1.39
12723007--12723058	27	1.9	27	92	0	86	13	32	21	32	1.92
12723103--12723172	27	2.6	27	82	15	90	45	0	11	42	1.40
12723113--12723168	27	2.1	27	93	3	96	51	0	8	39	1.33
12726037--12726092	29	1.9	29	92	0	94	32	12	8	46	1.73
12727537--12727561	6	4.2	6	100	0	50	84	0	0	16	0.63
12728347--12728384	19	2.0	20	85	15	53	28	13	0	57	1.36
12728649--12728686	19	2.0	20	85	15	53	28	13	0	57	1.36
12728131--12728735	302	2.0	303	99	0	1203	29	9	3	57	1.48
12733311--12733554	50	4.9	50	83	2	249	23	28	20	27	1.99
12733360--12733554	50	3.9	50	87	2	257	22	30	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12733310--12733607	50	5.9	50	80	6	217	24	27	18	28	1.98
12741048--12741593	44	12.4	44	78	0	471	31	17	21	29	1.96
12741046--12741520	177	2.7	177	87	0	646	32	17	21	29	1.96
12741083--12741590	177	2.9	177	84	1	536	31	18	21	29	1.97
12741798--12741833	16	2.1	18	90	10	58	77	16	2	2	1.00
12742982--12743046	3	21.0	3	72	12	51	29	7	1	61	1.33
12746495--12746537	19	2.3	18	80	11	52	67	4	0	27	1.10
12755761--12755863	54	1.9	53	82	7	127	40	4	2	51	1.38
12760814--12760838	9	2.8	9	100	0	50	48	0	12	40	1.40
12762136--12762268	50	2.7	50	84	0	167	27	22	29	21	1.99
12763405--12763647	121	2.0	122	99	0	479	33	8	22	35	1.84
12769207--12769251	22	2.0	22	100	0	90	40	13	17	28	1.88
12784968--12785017	22	2.2	22	85	3	73	24	0	24	52	1.48
12791303--12791343	20	2.0	20	100	0	82	9	29	24	36	1.87
12797559--12797606	16	3.1	16	91	5	73	58	0	31	10	1.32
12804554--12804939	51	7.6	50	77	7	341	29	26	14	29	1.95
12804554--12804939	102	3.8	102	90	1	578	29	26	14	29	1.95
12806099--12806131	11	2.8	12	90	9	50	36	15	12	36	1.84
12812292--12813387	551	2.0	551	92	0	1836	43	20	10	26	1.83
12819636--12819683	11	4.4	11	82	10	62	43	4	0	52	1.20
12823794--12823827	16	2.1	16	94	0	59	70	2	17	8	1.25
12825925--12825958	5	6.8	5	100	0	68	17	0	0	82	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12827255--12827279	5	5.0	5	100	0	50	40	0	20	40	1.52
12833984--12834020	9	4.1	9	89	0	56	48	13	8	29	1.71
12834825--12834850	5	5.2	5	100	0	52	19	19	19	42	1.90
12836191--12836249	3	19.7	3	100	0	118	32	0	0	67	0.91
12836846--12836886	19	2.2	19	86	0	55	26	2	7	63	1.33
12842058--12842112	25	2.2	25	83	3	67	25	14	18	41	1.88
12842169--12842226	9	6.4	9	84	7	82	41	22	8	27	1.83
12843728--12843780	25	2.1	25	85	0	70	33	0	1	64	1.05
12850645--12850810	88	1.9	88	100	0	332	31	20	12	34	1.90
12859403--12859508	55	1.9	55	92	0	176	39	10	9	40	1.72

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