genome.fa.s4.2.7.7.80.10.50.1000.18.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:  31929104

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   

This is table  18  of  82  ( 9773 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)
6152065--6152102	2	19.0	2	88	0	58	50	0	2	47	1.15
6152494--6152520	14	1.9	14	100	0	54	59	11	0	29	1.32
6152517--6152551	18	1.9	18	88	0	52	68	2	2	25	1.17
6153804--6153932	58	2.2	59	80	4	145	30	13	24	31	1.94
6153820--6154136	57	5.6	58	69	12	185	27	15	23	34	1.94
6154602--6154643	22	1.9	22	85	0	57	57	21	11	9	1.63
6166731--6166760	15	2.0	15	93	0	51	43	20	16	20	1.88
6166914--6166964	25	2.0	26	88	3	77	29	17	15	37	1.91
6166942--6167164	98	2.3	99	83	3	279	28	13	15	42	1.84
6171762--6171791	9	3.3	9	95	0	51	30	0	3	66	1.07
6177150--6177273	63	2.0	63	87	3	178	24	29	9	36	1.87
6177516--6177554	12	3.3	12	82	7	53	30	12	28	28	1.93
6177492--6177621	23	5.7	22	80	9	136	28	13	22	35	1.92
6182445--6182548	25	4.0	25	82	7	127	28	34	15	21	1.94
6182445--6182548	53	2.0	50	83	5	127	28	34	15	21	1.94
6185548--6185610	12	5.2	12	73	21	51	74	0	17	7	1.05
6185924--6186202	107	2.6	106	83	2	328	25	13	29	31	1.94
6186179--6186239	31	2.0	31	90	0	95	29	19	29	21	1.98
6187584--6187663	38	2.1	38	88	2	117	26	10	33	30	1.89
6191827--6191870	20	2.2	21	88	8	65	22	22	15	38	1.92
6197198--6197581	196	2.0	196	84	6	501	29	13	24	32	1.94
6199341--6199379	20	2.0	20	89	0	60	17	35	10	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6199831--6199876	19	2.4	20	82	10	60	54	0	2	43	1.12
6210935--6211052	38	3.1	38	86	6	161	32	7	31	28	1.85
6218937--6218969	15	2.2	16	89	10	52	54	0	36	9	1.32
6219059--6219242	56	3.3	56	92	0	298	38	8	26	27	1.84
6220319--6220377	22	2.7	22	92	5	93	42	6	11	38	1.68
6235971--6236005	12	2.9	12	91	0	52	42	0	0	57	0.99
6241196--6241407	55	3.8	55	89	0	298	27	34	15	21	1.94
6245542--6245736	67	2.9	67	86	3	223	34	26	13	26	1.93
6245575--6245736	35	4.9	32	74	9	137	34	25	14	25	1.94
6248765--6248799	2	17.5	2	100	0	70	48	0	0	51	1.00
6248845--6248928	42	2.0	42	88	0	123	23	34	19	22	1.96
6248856--6248937	42	2.0	42	90	4	130	21	36	19	21	1.95
6250273--6250310	20	1.9	20	88	0	58	36	21	2	39	1.67
6254160--6254267	32	3.3	32	69	12	83	31	21	16	30	1.95
6254175--6254276	32	3.1	32	69	13	89	35	23	14	26	1.94
6254160--6254299	67	2.1	67	85	2	183	32	21	15	30	1.94
6254160--6254321	67	2.4	67	81	4	166	33	22	16	27	1.95
6258658--6258698	20	2.0	20	90	0	64	41	14	2	41	1.59
6262624--6262663	21	2.0	20	90	9	64	50	15	10	25	1.74
6282869--6283187	55	5.8	55	91	0	476	27	34	14	23	1.94
6283002--6283141	26	5.2	26	63	21	72	28	38	13	19	1.90
6283027--6283112	27	3.1	27	65	25	72	25	40	13	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6283054--6283140	26	3.1	28	64	26	76	28	39	13	18	1.89
6284259--6284317	24	2.5	23	78	8	66	66	6	1	25	1.26
6286379--6286456	34	2.3	34	81	0	93	28	8	28	34	1.87
6303182--6303270	43	2.1	43	84	0	115	26	16	33	22	1.96
6306634--6306690	21	2.7	21	97	0	105	38	14	17	29	1.89
6307797--6307864	19	3.4	19	70	23	59	44	1	1	52	1.19
6309345--6309369	2	12.5	2	100	0	50	52	0	0	48	1.00
6311810--6311871	32	1.9	32	100	0	124	56	6	9	27	1.56
6312075--6312099	13	1.9	13	100	0	50	40	8	8	44	1.63
6316510--6316588	40	2.0	40	89	0	122	20	21	22	35	1.96
6317379--6317403	5	5.0	5	100	0	50	20	0	0	80	0.72
6317790--6317870	40	2.0	40	81	9	94	19	18	20	40	1.91
6317943--6318076	56	2.4	56	81	3	155	32	21	17	28	1.96
6321045--6321174	43	3.0	42	86	6	174	26	34	13	24	1.93
6322229--6322277	24	2.1	24	85	11	66	20	20	2	57	1.51
6327849--6327873	2	12.5	2	100	0	50	48	0	0	52	1.00
6327990--6328092	38	2.6	40	80	6	122	22	14	37	25	1.92
6328139--6328163	2	12.5	2	100	0	50	48	0	0	52	1.00
6328386--6328466	40	2.0	40	84	11	105	24	20	17	37	1.94
6338803--6338849	20	2.3	20	96	0	85	34	36	8	21	1.84
6341253--6341329	35	2.2	35	83	2	91	32	18	14	35	1.91
6343558--6343658	43	2.3	43	86	3	132	24	18	36	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6344067--6344106	21	1.9	21	89	0	62	25	22	20	32	1.98
6346133--6346257	43	2.9	43	83	2	162	24	18	36	20	1.94
6346252--6346297	22	2.1	22	88	8	67	28	0	36	34	1.58
6351242--6351328	46	2.0	41	91	8	129	29	4	20	43	1.72
6351325--6351352	2	14.0	2	100	0	56	50	0	0	50	1.00
6352955--6352998	17	2.6	16	86	10	61	36	2	4	56	1.32
6360537--6360668	36	3.7	35	80	9	133	26	33	15	25	1.95
6360537--6360642	33	3.1	33	86	4	131	27	31	14	27	1.95
6363343--6363500	29	5.4	28	79	10	156	39	9	11	39	1.74
6363351--6363500	59	2.6	58	82	6	169	42	8	11	38	1.72
6363512--6363546	18	1.9	18	100	0	70	34	8	11	45	1.71
6363670--6363702	17	1.9	17	88	11	50	39	3	15	42	1.62
6364975--6365020	21	2.3	19	78	14	56	67	6	2	23	1.25
6365389--6365597	55	3.8	55	87	0	283	24	13	33	28	1.94
6365664--6365688	7	3.6	7	100	0	50	32	0	28	40	1.57
6375142--6375181	21	1.9	21	89	0	62	62	5	2	30	1.29
6380011--6380129	51	2.3	52	92	4	199	33	22	13	30	1.93
6383327--6383423	47	2.1	47	92	0	158	25	23	20	29	1.99
6387437--6387485	21	2.4	20	83	6	62	16	2	24	57	1.50
6391615--6391682	34	2.0	34	82	0	82	29	13	27	29	1.94
6398488--6398555	34	2.0	34	82	0	82	26	13	30	29	1.94
6400357--6400421	36	1.9	33	82	14	80	26	38	15	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6400561--6400599	2	19.0	2	89	5	60	46	5	0	48	1.24
6406414--6406599	72	2.6	72	80	8	211	42	15	19	22	1.89
6406762--6406799	21	2.0	20	85	15	53	28	28	13	28	1.94
6409323--6409387	24	2.7	24	76	6	69	43	4	4	47	1.44
6409988--6410012	10	2.5	10	100	0	50	76	0	16	8	1.02
6422809--6422892	38	2.2	38	84	0	114	21	29	14	34	1.93
6422833--6422931	38	2.6	38	82	10	114	18	27	16	38	1.91
6430157--6430215	26	2.3	26	96	0	109	32	42	3	22	1.70
6430246--6430831	42	14.0	42	91	0	929	23	33	21	21	1.97
6433896--6433944	21	2.3	21	85	0	71	34	0	36	28	1.58
6436113--6436144	16	2.0	16	93	0	55	12	3	18	65	1.38
6437435--6437732	80	3.7	80	88	2	449	33	9	22	34	1.87
6438368--6438451	41	2.0	41	82	8	100	33	14	16	35	1.89
6441904--6442023	36	3.3	36	73	17	131	34	20	23	22	1.97
6441902--6442071	72	2.3	73	94	1	297	35	19	22	22	1.96
6441940--6442060	36	3.3	36	75	14	140	38	19	22	20	1.94
6445185--6445209	2	12.5	2	100	0	50	52	0	0	48	1.00
6445496--6445631	58	2.3	59	84	1	166	28	10	29	31	1.90
6448921--6449003	32	2.6	31	81	12	89	67	4	24	3	1.26
6449088--6449153	34	1.9	34	90	0	105	30	9	28	31	1.88
6454181--6454240	30	2.0	30	87	6	86	43	13	15	28	1.84
6455971--6456158	93	2.0	92	91	3	306	37	18	8	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6462226--6462377	6	25.3	6	71	0	70	35	7	44	13	1.71
6462281--6462342	30	2.1	30	90	0	97	32	8	46	12	1.71
6466058--6466097	19	2.2	18	95	4	71	52	0	0	47	1.00
6468701--6468739	17	2.3	17	90	0	60	7	30	23	38	1.83
6469416--6469454	18	2.2	18	85	0	51	23	2	48	25	1.63
6483652--6483689	20	1.9	20	84	10	51	71	0	5	23	1.07
6486848--6486949	36	2.8	36	90	0	150	20	14	38	26	1.91
6491851--6491880	15	2.0	15	93	0	51	23	0	30	46	1.52
6505829--6505863	16	2.2	16	94	0	61	14	2	20	62	1.43
6505929--6505963	17	2.1	17	94	0	61	62	0	25	11	1.28

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