genome.fa.s5.2.7.7.80.10.50.1000.3.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:  30015117

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   

This is table  3  of  85  ( 10117 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)
816246--816272	13	2.1	13	100	0	54	37	0	22	40	1.54
821728--821785	22	2.6	22	83	5	64	46	1	5	46	1.35
821738--821788	21	2.4	21	81	9	59	49	0	3	47	1.20
822312--822416	31	3.4	30	74	11	104	50	7	4	37	1.52
822646--822868	112	2.0	114	83	5	290	31	13	16	38	1.87
829883--829916	17	2.0	17	94	0	59	47	2	5	44	1.42
833145--833251	54	2.0	54	85	3	144	17	55	3	23	1.58
848354--848397	12	3.7	12	87	0	61	38	11	20	29	1.87
852154--852192	21	1.9	20	84	5	51	43	2	20	33	1.65
853630--853676	21	2.2	22	84	3	60	57	6	14	21	1.60
854006--854135	54	2.4	54	87	2	181	20	22	35	22	1.96
854006--854116	27	4.1	27	94	0	186	17	22	37	22	1.94
854197--854243	18	2.5	20	79	10	62	63	2	34	0	1.06
854193--854246	22	2.4	23	84	12	76	64	1	33	0	1.04
854670--854694	11	2.3	11	100	0	50	24	16	16	44	1.86
855030--855116	11	8.1	11	76	13	74	44	2	0	52	1.13
855054--855102	22	2.2	22	92	7	82	48	2	0	48	1.12
856119--856189	36	2.0	36	91	0	115	26	11	14	47	1.77
856118--856174	19	3.1	19	71	19	66	28	12	14	45	1.80
856397--856488	48	1.9	48	90	0	148	21	16	20	41	1.90
857441--857510	31	2.3	31	87	0	104	40	10	14	35	1.79
862804--862914	57	1.9	57	83	7	145	43	7	16	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
865231--865265	6	5.8	6	100	0	70	51	14	0	34	1.42
875957--876337	190	2.0	190	99	0	753	37	22	15	24	1.93
877312--877749	218	2.0	218	97	0	831	45	15	15	23	1.84
877530--877836	166	1.8	166	85	1	427	45	15	13	24	1.83
877961--878087	64	2.0	64	84	6	170	47	20	10	22	1.80
878742--878800	31	1.9	31	92	0	100	38	10	6	44	1.65
882466--882498	17	2.0	17	94	5	59	48	0	15	36	1.45
885660--885773	25	4.6	25	73	19	87	21	22	24	30	1.99
885660--885773	50	2.3	51	83	8	137	21	22	24	30	1.99
895522--895546	6	4.2	6	100	0	50	16	0	0	84	0.63
896136--896197	30	2.0	32	81	9	76	40	3	12	43	1.59
896654--896689	12	2.9	12	88	8	54	50	5	19	25	1.69
899357--899554	99	2.0	99	95	0	360	40	11	11	36	1.76
899872--899965	3	31.7	3	79	10	104	31	4	1	62	1.21
899872--899978	27	4.0	26	78	6	92	29	3	1	64	1.21
900354--900383	14	2.1	14	93	0	51	50	10	0	40	1.36
914267--914291	12	2.1	12	100	0	50	20	16	40	24	1.91
916052--916107	28	2.1	27	81	15	64	51	3	0	44	1.18
916845--916882	20	1.9	19	85	15	51	55	0	10	34	1.34
919756--919795	22	1.9	22	90	10	66	50	0	2	47	1.14
921990--922048	24	2.5	23	84	10	75	1	37	0	61	1.07
921990--922048	23	2.6	23	82	15	68	1	37	0	61	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
933434--933472	14	2.8	13	88	7	51	25	0	5	69	1.09
938970--939012	21	2.0	21	100	0	86	34	18	32	13	1.90
942905--942944	20	2.0	20	90	0	62	50	10	10	30	1.69
942893--942959	34	1.9	35	87	3	100	46	11	8	32	1.72
943515--943557	7	6.0	7	81	5	50	55	0	4	39	1.20
943515--943558	15	3.0	14	80	9	52	56	0	4	38	1.20
943553--943742	94	2.0	94	98	1	371	47	3	8	40	1.49
953647--953705	4	13.8	4	83	13	73	0	23	0	76	0.79
954868--955109	120	2.0	121	99	0	477	42	13	7	37	1.72
962147--962199	22	2.4	23	87	6	74	62	3	9	24	1.42
962148--962199	21	2.5	20	84	9	59	63	3	7	25	1.38
966178--966247	35	2.0	35	100	0	140	37	17	8	37	1.80
972090--972123	17	2.0	17	88	0	50	85	5	0	8	0.75
972952--973010	22	2.9	19	76	13	73	30	16	30	22	1.96
978056--978165	58	1.9	58	84	0	148	22	16	12	48	1.80
983119--983160	20	2.1	20	90	0	66	69	0	30	0	0.89
986772--986831	29	2.1	29	100	0	120	55	3	3	38	1.33
987659--987744	13	6.7	13	73	5	50	58	9	0	32	1.30
987639--987721	19	4.4	19	70	11	71	62	7	0	30	1.22
998218--998264	12	3.8	13	80	8	53	31	10	8	48	1.68
1000907--1000935	8	3.6	8	100	0	58	51	0	10	37	1.36
1004422--1004582	82	2.0	81	90	1	250	22	17	19	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005429--1006192	83	9.2	83	100	0	1528	41	2	11	44	1.54
1008879--1008927	25	2.0	24	84	8	62	34	6	4	55	1.44
1008967--1009022	17	3.2	19	75	14	57	28	0	1	69	0.98
1009005--1009029	7	3.6	7	100	0	50	36	0	0	64	0.94
1013883--1013928	23	2.0	23	100	0	92	52	26	4	17	1.63
1024385--1024736	140	2.5	140	79	5	372	24	24	15	34	1.95
1026831--1026890	19	3.1	20	69	21	56	36	5	8	50	1.55
1027123--1027354	116	2.0	114	89	6	353	50	14	5	30	1.64
1041856--1041892	9	4.1	9	92	0	65	29	10	13	45	1.77
1046905--1046948	16	2.8	16	82	6	54	68	0	2	29	1.02
1048791--1048845	24	2.2	26	78	12	62	58	5	5	30	1.44
1048994--1049034	21	1.9	22	90	5	66	39	0	2	58	1.11
1049315--1049349	15	2.2	16	95	5	63	57	2	0	40	1.14
1049336--1049617	93	3.1	92	61	15	211	42	6	8	42	1.60
1049333--1049702	184	2.0	185	98	1	724	40	7	8	43	1.62
1054100--1054139	13	3.2	13	85	3	55	62	7	2	27	1.35
1055104--1055684	116	5.0	115	88	3	833	40	14	12	32	1.83
1055099--1055684	232	2.5	232	93	2	980	40	14	12	32	1.83
1058969--1059677	354	2.0	354	100	0	1418	33	11	14	40	1.83
1061639--1061690	27	2.0	27	84	3	70	36	3	1	57	1.28
1069489--1069529	15	2.6	16	81	14	50	63	7	0	29	1.21
1071884--1071947	33	1.9	33	87	6	94	26	25	21	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077306--1077345	17	2.5	15	88	8	53	55	0	0	45	0.99
1079172--1079431	139	1.9	138	88	5	400	31	13	21	33	1.92
1079303--1079778	160	3.0	158	84	2	612	31	16	21	30	1.95
1088815--1089080	101	2.6	101	85	6	360	31	13	10	44	1.78
1091764--1091788	12	2.1	12	100	0	50	56	8	0	36	1.29
1105827--1105886	29	2.1	29	100	0	120	60	6	6	26	1.47
1107029--1107453	213	2.0	213	98	0	814	26	23	20	30	1.98
1108651--1108712	6	9.7	6	81	10	70	80	0	1	17	0.79
1108639--1108686	19	2.5	19	89	0	69	81	4	0	14	0.84
1108650--1108712	7	9.6	7	81	10	71	80	0	1	17	0.78
1108651--1108712	13	4.8	13	84	4	81	80	0	1	17	0.79
1110859--1110894	15	2.4	15	95	0	63	38	0	5	55	1.23
1111706--1111862	78	2.0	79	96	1	289	39	12	8	38	1.75
1111954--1111989	17	2.1	18	89	5	56	27	0	0	72	0.85
1115339--1115868	240	2.3	227	79	12	503	40	16	8	33	1.80
1119729--1119778	22	2.2	23	82	10	59	48	2	4	46	1.32
1120082--1120122	20	2.1	19	86	4	55	73	0	2	24	0.96
1121483--1121516	17	2.0	17	88	0	50	82	8	0	8	0.85
1121626--1121689	20	3.2	20	77	16	78	70	0	29	0	0.88
1121634--1121698	14	4.7	14	71	21	57	73	0	26	0	0.83
1121632--1121699	20	3.4	19	75	16	75	73	0	26	0	0.83
1122863--1122897	18	1.9	18	94	0	61	25	0	14	60	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123427--1123462	5	7.4	5	93	6	65	41	0	0	58	0.98
1128362--1128550	92	2.1	92	98	0	369	37	14	10	37	1.81
1129830--1129905	38	2.0	38	94	2	136	35	14	14	35	1.87
1138569--1138608	21	2.0	20	90	5	62	52	0	2	45	1.14
1138988--1139301	155	2.0	156	99	0	621	41	12	12	34	1.79
1143580--1144003	149	2.8	149	83	9	581	51	7	8	31	1.62
1144279--1144465	96	1.9	100	93	4	328	32	6	5	55	1.49
1144171--1144616	247	1.8	242	90	5	718	30	8	7	52	1.61
1144768--1145374	146	4.0	148	81	12	678	31	9	7	51	1.62
1145130--1145165	16	2.3	16	90	4	56	30	5	8	55	1.52

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