genome.fa.s5.2.7.7.80.10.50.1000.34.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   

This is table  34  of  103  ( 12320 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)
12835492--12835531	19	2.2	19	95	4	73	42	5	0	52	1.23
12837606--12837696	34	2.6	34	77	1	92	28	12	26	32	1.92
12853509--12853561	25	2.1	25	92	0	88	30	9	28	32	1.88
12866730--12866829	38	2.6	38	91	1	155	21	21	33	25	1.97
12867040--12867091	21	2.5	21	80	0	59	32	19	26	21	1.97
12867055--12867094	21	1.9	21	89	0	62	30	15	30	25	1.95
12870660--12870795	43	3.2	43	86	4	186	28	16	32	22	1.96
12873582--12873736	52	3.0	52	90	0	247	32	28	14	25	1.94
12876759--12876795	11	3.5	11	78	14	51	0	32	0	67	0.91
12884760--12884866	43	2.5	43	86	3	144	20	37	17	24	1.94
12892115--12892179	20	3.2	20	91	4	94	30	41	4	23	1.74
12892178--12892339	43	3.8	43	85	4	202	21	37	19	22	1.95
12896936--12897113	63	2.8	63	92	0	284	29	11	33	25	1.91
12903090--12903246	55	2.8	55	75	2	154	26	37	14	22	1.92
12913569--12913601	17	1.9	17	88	11	50	42	15	3	39	1.62
12913766--12913917	28	5.3	28	80	10	155	38	12	9	38	1.76
12913752--12913917	59	2.8	58	82	7	201	41	12	9	36	1.75
12913776--12913915	29	4.9	28	81	6	163	38	13	10	37	1.78
12922849--12922886	20	1.9	20	100	0	76	44	21	5	28	1.73
12927704--12927750	22	2.1	22	96	0	85	34	10	44	10	1.74
12929864--12929929	14	4.8	14	68	22	50	18	3	9	69	1.28
12931142--12931178	16	2.2	18	85	9	51	27	0	8	64	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12932162--12932308	55	2.7	55	91	0	240	27	35	13	23	1.92
12936673--12936754	37	2.2	37	88	0	119	28	12	36	23	1.90
12946713--12946854	59	2.5	58	86	6	193	41	10	10	37	1.74
12946668--12946871	28	7.2	28	76	14	170	38	10	10	40	1.74
12956089--12956249	54	3.0	54	96	0	295	25	39	13	21	1.90
12957373--12957407	17	2.1	17	89	10	54	0	25	0	74	0.82
12957477--12957533	24	2.3	25	81	6	71	68	1	24	5	1.20
12969308--12969339	2	16.0	2	93	0	55	50	3	0	46	1.17
12969304--12969336	10	3.3	10	95	0	57	51	6	0	42	1.26
12969287--12969339	8	6.4	8	85	8	52	49	11	0	39	1.39
12969287--12969339	12	4.2	12	81	9	61	49	11	0	39	1.39
12970451--12970783	68	4.9	68	75	10	252	34	17	9	38	1.83
12974886--12975054	85	2.0	84	100	0	329	22	29	9	37	1.86
12989412--12989546	37	3.5	37	70	20	121	20	12	40	25	1.88
12989395--12989558	81	2.0	81	89	2	249	23	12	38	25	1.90
12989623--12989657	2	17.5	2	100	0	70	48	0	0	51	1.00
12990615--12990680	29	2.4	28	87	9	100	45	12	15	27	1.81
12994615--12994873	29	8.9	28	80	6	284	39	8	14	37	1.77
12994615--12994873	59	4.5	58	88	3	319	39	8	14	37	1.77
12999255--12999284	3	10.3	3	92	7	53	66	0	0	33	0.92
12999515--12999549	18	1.9	18	88	0	52	62	5	5	25	1.40
13029515--13029713	74	2.7	74	85	3	265	40	16	20	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13038056--13038190	55	2.5	55	89	3	200	22	13	37	26	1.91
13040049--13040097	22	2.2	22	82	7	55	14	26	6	53	1.64
13043786--13043811	13	2.0	13	100	0	52	46	7	0	46	1.31
13045047--13045082	19	1.9	19	94	5	65	44	30	0	25	1.54
13049670--13049697	2	14.0	2	100	0	56	50	0	0	50	1.00
13063164--13063300	28	4.7	29	72	21	101	38	13	7	40	1.73
13063162--13063298	59	2.3	59	82	8	156	38	13	7	40	1.73
13063175--13063300	29	4.3	29	73	14	107	37	15	7	39	1.76
13069357--13069394	19	2.0	19	94	0	67	42	28	0	28	1.56
13074488--13074633	37	3.9	37	87	7	224	25	36	10	28	1.88
13088853--13088895	21	2.0	23	86	9	63	48	9	25	16	1.75
13088853--13088900	21	2.3	20	75	10	51	54	8	22	14	1.67
13106948--13107016	23	2.9	23	86	4	84	4	2	15	76	1.06
13109992--13110024	17	1.9	17	88	11	50	42	15	3	39	1.62
13110166--13110336	29	5.9	28	81	8	175	38	11	9	40	1.74
13110176--13110336	57	2.8	56	81	8	173	40	10	9	39	1.73
13111516--13111604	35	2.5	35	83	7	110	19	17	17	44	1.86
13112267--13112320	25	2.2	25	82	0	63	46	12	3	37	1.60
13113334--13113374	19	2.2	19	90	0	64	17	36	12	34	1.87
13118027--13118053	2	13.5	2	100	0	54	51	48	0	0	1.00
13118053--13118099	2	24.0	2	95	4	87	48	0	0	51	1.00
13124465--13124505	21	1.9	22	90	5	66	51	7	24	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13124465--13124509	20	2.2	21	84	11	58	55	6	22	15	1.63
13124463--13124511	21	2.3	20	80	10	62	55	6	22	16	1.63
13128179--13128224	20	2.3	20	92	0	74	30	4	19	45	1.70
13128269--13128327	28	2.1	28	84	6	75	33	20	22	23	1.97
13139390--13139538	66	2.3	65	83	3	181	32	26	14	26	1.95
13151040--13151064	2	12.5	2	100	0	50	52	48	0	0	1.00
13164394--13164881	85	5.8	85	88	2	700	41	16	3	38	1.64
13164682--13164735	27	2.0	28	85	10	76	50	14	0	35	1.44
13164784--13164816	13	2.5	13	86	13	50	45	21	0	33	1.52
13167896--13168624	342	2.1	342	87	2	1054	44	14	13	27	1.83
13169758--13169979	29	7.6	28	82	7	246	37	10	13	37	1.80
13169761--13169945	57	3.2	57	89	1	262	38	10	14	36	1.81
13170131--13170163	17	1.9	17	88	11	50	39	3	15	42	1.62
13171043--13171182	62	2.2	62	79	3	147	45	12	14	28	1.81
13170794--13172000	340	3.5	338	83	7	1456	43	15	13	27	1.83
13171506--13171562	20	2.8	20	97	0	105	45	7	5	42	1.53
13171856--13171893	20	1.9	20	88	0	58	42	5	7	44	1.56
13172756--13172810	21	2.6	21	91	0	92	20	29	23	27	1.99
13175061--13175197	62	2.2	62	80	6	152	42	15	16	26	1.87
13174649--13176399	341	5.2	341	86	5	2438	44	15	13	26	1.84
13175402--13175531	62	2.1	62	82	4	154	44	14	13	26	1.83
13175402--13175557	63	2.5	63	79	11	153	44	13	12	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13177199--13177223	3	8.3	3	100	0	50	68	0	0	32	0.90
13179932--13179969	19	2.0	19	94	0	67	42	28	0	28	1.56
13182543--13182592	15	3.3	15	88	2	73	0	28	0	72	0.86
13182541--13182581	5	8.2	5	94	0	73	0	21	0	78	0.76
13182752--13182832	33	2.4	34	77	8	94	30	23	12	33	1.92
13182993--13183050	29	2.0	29	83	12	75	12	29	5	53	1.59
13185156--13185251	41	2.3	41	92	0	156	42	14	15	27	1.86
13185245--13185285	22	1.9	22	85	5	57	51	4	19	24	1.66
13190887--13190935	14	3.5	14	80	8	55	75	2	20	2	1.00
13194449--13195425	499	2.0	499	97	0	1864	35	15	15	33	1.89
13197662--13197733	30	2.4	30	84	11	103	27	1	5	65	1.23
13197670--13197743	29	2.7	28	82	12	91	25	1	5	67	1.20
13197662--13197733	29	2.4	29	86	8	101	27	1	5	65	1.23
13197715--13197764	10	4.6	11	87	12	68	22	2	4	72	1.12
13203593--13203636	2	22.0	2	95	0	79	50	0	2	47	1.13
13215434--13215548	37	3.1	37	89	2	178	25	33	9	32	1.88
13216931--13216978	20	2.5	19	82	3	51	2	20	8	68	1.26
13217359--13217420	21	3.0	21	82	0	79	46	16	4	32	1.68
13217498--13217563	21	3.1	21	86	2	87	45	19	6	28	1.74
13217965--13218009	22	2.1	22	83	4	56	37	13	4	44	1.64
13218041--13218079	21	1.9	20	89	5	60	33	7	20	38	1.81
13218647--13218681	16	2.2	16	89	0	52	22	22	11	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13219252--13219293	21	2.0	21	85	0	57	52	19	4	23	1.65
13222491--13222519	14	2.0	15	93	6	51	6	20	6	65	1.40
13222837--13222905	30	2.3	30	82	9	79	28	28	1	40	1.65
13223696--13223735	21	1.9	21	84	0	53	20	7	25	47	1.75
13223860--13223914	21	2.7	21	82	2	58	29	3	18	49	1.64
13224607--13224736	59	2.2	59	91	5	210	35	13	20	30	1.91
13224607--13224694	29	3.0	29	65	15	81	37	13	20	28	1.91
13224607--13224698	30	3.1	30	66	18	84	38	13	21	27	1.90
13225971--13226012	20	2.2	19	84	16	52	30	2	26	40	1.69
13226007--13226125	37	3.2	37	90	4	204	28	9	36	25	1.87

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103