genome.fa.s12.2.7.7.80.10.50.1000.3.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   

This is table  3  of  128  ( 15303 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)
789103--789145	18	2.4	18	88	7	61	51	0	0	48	1.00
800316--800341	11	2.4	11	100	0	52	26	23	19	30	1.98
800318--800386	32	2.2	32	91	0	111	28	24	13	33	1.93
813952--813993	22	1.9	22	85	0	57	61	2	4	30	1.29
819197--819252	23	2.4	23	80	17	62	60	3	0	35	1.14
819215--819263	11	4.4	11	76	5	53	59	0	2	38	1.09
820432--820485	21	2.5	20	77	11	54	11	11	16	61	1.57
825024--825050	4	6.8	4	100	0	54	25	0	25	48	1.52
826456--826489	9	3.8	9	84	0	50	47	0	2	50	1.16
828051--828083	5	6.6	5	92	0	57	42	54	0	3	1.15
831550--832208	328	2.1	316	87	6	956	26	22	15	35	1.94
832538--832565	3	9.3	3	100	0	56	32	32	0	35	1.58
839218--839293	22	3.4	22	68	31	70	57	15	18	7	1.62
839216--839290	24	3.2	24	68	31	72	57	17	17	8	1.63
839212--839305	46	2.0	46	100	0	188	59	14	17	8	1.59
839981--840013	17	2.0	17	94	5	59	42	12	27	18	1.85
840180--840229	11	4.5	11	77	5	55	34	2	4	60	1.27
842327--842394	32	2.1	32	83	0	82	39	17	14	27	1.89
844997--845073	30	2.5	31	81	8	95	68	1	1	28	1.05
845021--845061	18	2.2	19	91	4	66	75	0	0	24	0.80
845010--845034	10	2.5	10	100	0	50	84	0	0	16	0.63
845020--845062	19	2.3	19	87	0	68	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
845035--845137	41	2.5	41	85	1	161	59	0	3	35	1.23
845052--845110	30	2.0	30	90	6	93	50	1	5	42	1.34
847555--848605	524	2.0	525	99	0	2086	40	10	10	39	1.74
854773--854814	6	7.0	6	100	0	84	16	0	0	83	0.65
877210--877926	127	5.6	128	79	10	711	41	13	17	27	1.87
877181--877926	125	5.9	128	79	10	689	41	13	17	27	1.87
877297--877935	262	2.5	254	80	9	708	41	13	17	28	1.86
877716--878147	224	1.9	226	88	2	663	43	13	17	25	1.85
877935--878246	125	2.5	125	90	0	473	41	14	17	26	1.88
878106--878392	109	2.6	110	77	10	327	39	15	17	27	1.90
880525--880585	30	2.0	30	87	0	86	31	14	6	47	1.70
901897--901932	7	5.1	7	100	0	72	55	30	0	13	1.39
905177--905227	25	2.0	25	88	0	75	25	9	39	25	1.86
915805--915829	2	12.5	2	100	0	50	48	0	0	52	1.00
918455--918484	2	15.0	2	100	0	60	50	0	0	50	1.00
920366--920407	22	2.0	21	81	13	50	50	2	4	42	1.36
920408--920494	42	2.2	38	84	11	120	32	16	9	42	1.79
920417--920496	42	2.0	42	92	5	137	32	15	11	41	1.82
928861--929197	160	2.1	159	94	0	593	45	15	16	23	1.85
933622--933692	35	2.0	35	91	0	115	47	9	8	33	1.67
936565--936600	17	2.1	18	89	5	56	16	27	2	52	1.57
941077--941745	154	4.4	154	87	6	905	51	8	10	30	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
941077--941747	304	2.2	306	87	5	962	51	8	10	29	1.65
944122--944160	19	2.1	19	85	0	51	28	2	0	69	1.02
945102--945143	21	2.1	19	86	8	57	38	2	7	52	1.42
946067--946111	7	6.4	7	89	0	63	20	2	35	42	1.64
947328--947369	19	2.2	19	86	0	57	54	2	0	42	1.13
955398--955447	16	2.8	18	73	17	50	30	2	2	66	1.14
955593--955656	20	3.2	20	85	10	80	57	4	0	37	1.19
956209--956258	22	2.3	23	79	6	59	32	6	22	40	1.78
957687--957717	13	2.3	14	94	5	55	25	6	0	67	1.14
965506--965773	72	3.7	72	91	2	396	34	17	17	30	1.93
967371--967436	32	2.0	33	94	2	116	42	3	31	22	1.69
968557--968606	16	2.8	18	73	17	50	30	2	2	66	1.14
984808--984857	20	2.5	21	81	9	61	56	10	0	34	1.33
985802--985828	2	13.5	2	100	0	54	51	0	0	48	1.00
986057--986097	18	2.3	19	87	8	59	65	0	7	26	1.18
987047--987073	2	13.5	2	100	0	54	51	48	0	0	1.00
990505--990595	45	2.0	44	81	6	103	30	4	27	37	1.76
1001370--1002792	711	2.0	711	99	0	2801	33	20	25	20	1.97
1012219--1012264	24	1.9	24	86	8	67	50	15	10	23	1.75
1012497--1012569	36	2.0	36	86	5	103	27	31	13	27	1.94
1013476--1013551	31	2.5	31	95	0	134	28	17	11	42	1.84
1014385--1014444	31	1.9	32	89	3	95	35	10	11	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021903--1021974	18	4.1	18	74	10	60	45	0	2	51	1.15
1021931--1021986	9	6.1	9	75	19	53	44	0	1	53	1.11
1021943--1021986	19	2.4	18	92	3	70	45	0	0	54	0.99
1021912--1022007	20	4.6	20	77	13	70	40	0	4	55	1.19
1023450--1023484	18	1.9	18	94	0	61	11	25	28	34	1.91
1029471--1029537	31	2.2	30	84	10	82	43	0	2	53	1.16
1033485--1033549	23	2.8	22	82	15	69	40	1	10	47	1.48
1033652--1033691	20	2.0	20	90	0	62	27	10	12	50	1.72
1033637--1033703	34	1.9	35	84	3	91	31	8	13	46	1.74
1034007--1034076	28	2.5	28	84	11	81	41	1	18	38	1.60
1039694--1039740	4	11.8	4	86	0	58	70	2	6	21	1.20
1039705--1040020	73	4.5	72	77	11	273	60	2	8	28	1.39
1039868--1040016	63	2.3	63	93	3	246	60	1	7	30	1.32
1041791--1041868	24	3.2	24	63	22	63	44	3	10	41	1.56
1041779--1041876	49	2.0	49	100	0	196	46	4	10	38	1.57
1045910--1045951	4	10.8	4	84	5	59	71	0	4	23	1.05
1045917--1046159	69	3.4	69	76	10	197	60	3	9	27	1.43
1046080--1046238	59	2.5	62	83	9	182	61	1	6	30	1.30
1061220--1061269	25	2.0	25	84	0	64	8	34	2	56	1.40
1069473--1069526	21	2.6	21	87	0	72	31	31	5	31	1.81
1074911--1074942	15	2.1	16	94	5	57	65	0	6	28	1.16
1075767--1075798	15	2.1	16	94	5	57	65	0	6	28	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074145--1075857	856	2.0	856	99	0	3417	27	20	25	27	1.99
1079428--1079469	16	2.6	16	96	0	75	42	26	7	23	1.80
1088093--1088137	16	2.8	17	84	15	60	62	0	0	37	0.96
1088095--1088148	22	2.5	21	88	8	81	64	0	0	35	0.94
1088101--1088137	18	2.2	16	90	9	56	62	0	0	37	0.96
1097429--1097468	21	1.9	21	84	0	53	47	2	2	47	1.29
1105671--1105721	13	3.9	13	77	10	59	37	0	1	60	1.08
1106861--1106935	19	4.0	19	70	15	66	37	1	25	36	1.65
1110402--1110445	18	2.5	18	88	3	63	72	6	4	15	1.22
1110536--1110573	20	1.9	20	88	0	58	36	2	13	47	1.56
1110696--1110740	24	1.9	23	86	4	63	57	2	8	31	1.41
1110704--1110758	20	2.8	20	77	2	58	54	1	9	34	1.43
1113444--1113481	20	1.9	19	85	15	51	36	7	2	52	1.45
1117793--1117833	20	2.0	20	95	0	73	31	17	4	46	1.69
1125615--1125639	2	12.5	2	100	0	50	48	0	0	52	1.00
1126601--1126639	21	2.0	21	90	10	64	38	0	20	41	1.53
1130405--1130455	21	2.4	21	84	9	68	35	19	5	39	1.76
1139657--1139732	9	8.4	9	84	5	100	40	25	9	25	1.84
1139657--1139724	27	2.5	27	95	0	118	39	25	10	25	1.87
1141535--1141588	18	3.2	17	76	5	56	68	9	0	22	1.17
1142992--1143046	17	3.2	16	75	10	56	30	1	1	65	1.13
1150268--1150293	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154110--1154173	19	3.3	19	72	8	56	34	9	21	34	1.86
1154474--1154508	3	11.7	3	100	0	70	65	0	0	34	0.93
1159779--1159843	3	21.3	3	84	3	85	33	3	0	63	1.10
1161204--1161229	3	8.7	3	100	0	52	69	0	30	0	0.89
1173685--1173872	93	2.0	93	98	0	367	20	24	22	32	1.98
1174223--1174252	14	2.2	14	94	5	53	40	0	0	60	0.97
1174730--1174802	34	2.1	34	100	0	146	34	10	9	45	1.72
1178275--1178317	21	2.0	21	86	0	59	69	0	2	27	1.00
1180647--1180671	11	2.3	11	100	0	50	44	0	0	56	0.99
1183458--1184030	285	2.0	286	99	0	1130	27	18	13	39	1.89

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   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128