genome.fa.s5.2.7.7.80.10.50.1000.79.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  79  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)
29551962--29552013	11	5.2	11	75	15	51	67	0	0	32	0.91
29554848--29554882	17	2.1	16	89	5	52	22	0	0	77	0.78
29554821--29554907	32	2.7	32	77	18	92	22	4	1	71	1.11
29555966--29556004	16	2.4	16	86	0	51	28	2	2	66	1.18
29569645--29569823	89	2.0	89	97	0	340	36	20	9	33	1.85
29575370--29575398	2	14.5	2	100	0	58	51	0	48	0	1.00
29575439--29575466	2	14.0	2	100	0	56	50	0	50	0	1.00
29584527--29584603	39	2.0	39	92	0	127	15	11	23	49	1.77
29585055--29585095	20	2.0	21	85	9	57	17	31	9	41	1.82
29599247--29599278	2	16.0	2	100	0	64	50	0	50	0	1.00
29603118--29603180	21	3.0	21	92	0	90	22	23	15	38	1.93
29608345--29608372	3	9.3	3	100	0	56	64	0	35	0	0.94
29614465--29614536	24	3.0	23	80	11	76	75	19	5	0	1.00
29614462--29614538	28	2.8	28	76	11	77	74	20	5	0	1.01
29617801--29617941	75	1.9	75	82	8	180	43	9	12	34	1.75
29620899--29620974	39	1.9	39	91	0	125	35	18	14	31	1.91
29622350--29622376	2	13.5	2	100	0	54	0	51	0	48	1.00
29625294--29625337	18	2.4	18	85	11	54	72	0	6	20	1.07
29641807--29641900	2	49.0	2	84	12	126	50	0	47	1	1.08
29645431--29645507	38	2.0	38	94	0	136	33	11	16	37	1.85
29662596--29662663	29	2.4	30	81	13	81	42	1	0	55	1.08
29671273--29671376	14	7.6	14	65	21	51	59	0	0	38	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29671274--29671369	40	2.4	41	89	5	142	60	1	1	37	1.11
29671362--29671410	23	2.2	22	88	3	71	53	2	0	44	1.12
29672219--29672292	15	5.2	15	78	15	59	51	2	1	44	1.24
29672913--29672952	15	2.7	15	84	0	53	22	5	27	45	1.73
29673401--29673431	16	1.9	16	93	0	53	25	41	12	19	1.87
29673439--29673628	88	2.2	88	89	0	290	26	37	15	20	1.92
29675458--29675561	14	7.6	14	65	21	51	59	0	0	38	1.10
29675459--29675554	40	2.4	41	89	5	142	60	1	1	37	1.11
29675547--29675595	23	2.2	22	88	3	71	53	2	0	44	1.12
29680481--29680541	19	3.1	19	77	13	61	62	1	1	34	1.15
29689634--29689658	2	12.5	2	100	0	50	52	0	0	48	1.00
29706844--29707182	167	2.0	166	91	0	543	17	25	13	43	1.86
29709561--29709667	53	2.0	54	88	1	162	39	12	16	31	1.86
29712876--29712941	15	4.8	15	77	15	72	43	0	0	56	0.99
29712876--29712942	35	1.9	35	84	6	91	43	0	0	56	0.99
29712876--29712942	27	2.5	28	90	4	102	43	0	0	56	0.99
29712896--29712961	27	2.4	27	85	5	80	43	1	1	53	1.19
29713453--29713487	17	2.0	18	88	5	54	51	5	0	42	1.25
29719184--29719223	20	2.0	20	90	4	64	35	7	10	47	1.65
29723354--29723400	21	2.2	21	85	7	60	38	2	17	42	1.61
29724542--29724635	47	2.0	47	100	0	188	34	10	12	42	1.78
29724819--29724909	30	3.0	30	90	1	128	38	6	23	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29726398--29726461	32	2.0	32	84	0	83	39	6	18	35	1.76
29730407--29730431	2	12.5	2	100	0	50	48	0	0	52	1.00
29741421--29741536	2	57.5	2	86	5	153	47	1	1	48	1.22
29743241--29743298	30	1.9	30	86	6	82	17	10	25	46	1.79
29748670--29748904	115	2.0	116	97	0	445	43	14	8	33	1.75
29750056--29750090	3	11.7	3	87	0	52	28	2	2	65	1.21
29750538--29750608	30	2.4	30	75	13	74	54	4	4	36	1.39
29761922--29762007	42	2.0	42	95	0	154	30	9	13	46	1.75
29762664--29762700	2	19.0	2	94	5	67	48	0	0	51	1.00
29765535--29765587	17	3.1	17	86	2	61	41	15	5	37	1.70
29774822--29774864	23	1.9	22	85	4	59	46	13	25	13	1.81
29778769--29778814	19	2.4	20	82	10	60	54	0	2	43	1.12
29779216--29779253	20	1.9	20	100	0	76	28	5	21	44	1.73
29782769--29782823	18	3.2	18	67	15	53	40	16	32	10	1.83
29782757--29782832	33	2.3	33	88	0	116	34	15	38	11	1.84
29783297--29783339	23	1.9	22	85	4	59	46	13	25	13	1.81
29786434--29786460	8	3.4	8	100	0	54	88	11	0	0	0.50
29789822--29789848	2	13.5	2	100	0	54	51	0	0	48	1.00
29789789--29789905	57	2.1	56	91	3	189	55	3	6	33	1.43
29789879--29789930	2	26.0	2	96	0	95	48	0	1	50	1.12
29790329--29790387	27	2.2	27	82	11	68	62	5	1	30	1.26
29796544--29796592	22	2.2	22	92	0	80	26	10	32	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29806207--29806289	28	3.0	28	85	1	114	39	13	20	26	1.89
29822205--29822238	14	2.3	15	90	5	52	55	2	5	35	1.39
29825408--29825437	13	2.3	13	94	0	51	70	0	23	6	1.11
29832973--29833064	41	2.3	40	86	3	130	52	8	14	25	1.70
29832709--29833331	314	2.0	307	85	4	838	45	8	20	26	1.79
29833016--29833950	266	3.5	265	82	3	1081	45	8	19	26	1.79
29834150--29834219	35	2.0	35	86	10	99	41	5	18	34	1.74
29835023--29835074	20	2.9	17	73	15	59	53	0	0	46	1.00
29835301--29835349	18	2.7	18	87	0	80	48	0	0	51	1.00
29834947--29835505	278	2.0	277	96	2	1050	42	9	11	37	1.73
29839926--29839982	30	1.9	29	92	3	96	43	0	38	17	1.49
29839922--29839989	30	2.3	30	78	14	86	42	0	39	17	1.50
29840836--29840912	38	2.0	38	100	0	154	37	15	5	41	1.70
29849343--29849429	35	2.5	36	83	9	108	40	17	5	36	1.73
29857224--29857309	39	2.2	39	89	2	127	9	9	52	29	1.64
29857875--29857908	16	2.1	16	88	0	50	38	8	11	41	1.73
29860739--29860771	6	5.3	6	92	7	57	33	15	30	21	1.94
29864893--29864921	6	4.8	6	100	0	58	34	48	0	17	1.47
29880237--29880273	2	18.5	2	100	0	74	48	0	0	51	1.00
29881762--29882049	45	6.2	45	72	11	211	33	14	18	34	1.91
29881842--29882039	101	2.0	101	88	0	297	35	14	18	31	1.91
29882065--29882139	29	2.7	28	83	6	89	36	10	13	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29883067--29883093	2	13.5	2	100	0	54	48	0	0	51	1.00
29885517--29885699	84	2.2	84	85	3	244	32	12	23	31	1.91
29892489--29892520	13	2.3	15	89	10	50	25	0	0	75	0.81
29901242--29901271	14	2.1	14	93	0	51	46	0	6	46	1.29
29903992--29904030	2	19.5	2	100	0	78	48	0	0	51	1.00
29911733--29911775	2	22.0	2	80	4	52	0	46	4	48	1.22
29912987--29913030	13	2.8	17	74	22	51	38	9	4	47	1.56
29917497--29917561	33	2.0	33	87	0	94	27	29	27	15	1.96
29920034--29920080	2	24.0	2	91	4	78	48	2	0	48	1.13
29920064--29920113	18	2.6	19	78	18	59	44	4	4	46	1.41
29923797--29923955	78	2.0	78	83	12	196	35	10	6	46	1.66
29924208--29924298	47	1.9	47	86	0	128	25	14	23	37	1.92
29949099--29949167	34	2.0	34	88	0	102	33	20	10	36	1.86
29950158--29950338	29	6.3	29	80	8	165	37	12	9	39	1.77
29950156--29950338	58	3.2	57	80	8	210	37	13	9	39	1.77
29951360--29951403	12	3.8	11	91	8	70	0	13	0	86	0.57
29951421--29951486	17	3.9	17	84	9	82	0	27	0	72	0.85
29951420--29951491	4	19.5	4	74	20	68	0	29	0	70	0.87
29951361--29951566	83	2.5	83	85	4	269	2	29	1	66	1.12
29951515--29951565	7	7.0	7	77	14	50	1	21	0	76	0.88
29951508--29951566	24	2.5	24	81	10	75	1	25	0	72	0.93
29951521--29951566	11	4.4	11	81	10	60	2	23	0	73	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29951536--29951631	20	4.7	21	73	8	74	0	34	4	61	1.15
29951516--29951639	61	2.0	63	84	9	166	0	31	5	62	1.24
29951580--29951623	17	2.7	16	89	3	61	0	31	0	68	0.90
29951508--29951629	24	5.5	23	72	14	71	0	30	3	65	1.14
29952892--29952930	2	19.5	2	89	0	60	46	2	2	48	1.29
29957556--29957581	2	13.0	2	100	0	52	0	0	50	50	1.00
29958183--29958372	28	6.7	29	75	9	142	29	16	20	33	1.95
29958326--29958385	28	2.2	27	85	8	77	31	20	18	30	1.96
29958351--29958619	131	2.1	130	83	3	335	30	16	17	35	1.92
29959184--29959215	11	2.8	12	86	13	50	37	15	0	46	1.46

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