genome.fa.s2.2.7.7.80.10.50.1000.3.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: Chr10
Parameters: 2 7 7 80 10 50 1000
Length:  48586650

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   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   

This is table  3  of  145  ( 17348 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)
888157--888205	22	2.3	21	82	10	55	67	14	2	16	1.33
888835--889337	215	2.3	215	88	0	720	31	14	23	31	1.94
893586--893610	12	2.1	12	100	0	50	24	32	0	44	1.54
895783--895852	31	2.3	31	84	0	95	42	10	11	35	1.74
903031--903084	29	1.9	27	88	7	81	59	5	12	22	1.54
904106--904169	31	2.1	31	82	5	76	31	12	17	39	1.87
904803--904829	2	13.5	2	100	0	54	51	0	0	48	1.00
905150--905182	17	1.9	17	88	11	50	66	3	9	21	1.33
909215--909312	40	2.4	40	89	5	144	47	13	16	22	1.81
921584--921681	49	2.0	48	96	2	178	14	11	19	55	1.69
922621--922704	40	2.1	40	97	0	159	48	10	8	32	1.68
923175--923234	31	2.0	30	83	3	75	45	10	5	40	1.60
923373--923519	72	2.0	73	98	1	287	47	8	6	37	1.60
923766--923842	30	2.4	33	85	6	106	33	14	10	41	1.80
924551--924591	18	2.2	19	86	4	57	24	0	4	70	1.06
927359--927408	24	2.1	24	92	0	82	48	6	10	36	1.61
928203--928244	22	2.0	21	90	4	66	50	2	0	47	1.14
929015--929055	15	2.7	15	92	0	64	68	0	29	2	1.03
946912--946944	11	2.8	12	86	9	50	45	0	0	54	0.99
949717--949753	2	18.5	2	100	0	74	51	0	0	48	1.00
951545--951615	31	2.2	32	82	5	90	49	11	7	32	1.65
952907--952969	31	2.0	31	84	3	81	46	15	9	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
955218--955278	4	15.0	4	77	19	56	0	22	3	73	0.97
955207--955280	24	3.0	24	86	9	96	0	25	2	71	0.99
958149--958180	12	2.8	12	90	9	50	50	0	6	43	1.27
958158--958269	31	3.7	30	73	13	97	41	6	12	39	1.68
959827--960560	366	2.0	367	99	0	1461	36	11	16	35	1.85
966772--966802	16	1.9	16	93	0	53	54	3	6	35	1.42
975477--975504	2	14.0	2	100	0	56	50	0	0	50	1.00
979058--979419	124	2.9	122	81	4	399	38	17	13	30	1.89
979585--979613	8	3.6	8	100	0	58	37	24	0	37	1.56
979577--979623	16	2.9	16	81	12	60	38	25	2	34	1.68
979454--979764	168	1.9	165	87	2	460	40	19	9	30	1.84
979862--979906	4	11.2	4	100	0	90	51	24	0	24	1.49
979745--980017	143	1.9	141	82	8	340	42	17	9	30	1.81
981073--981109	20	2.0	20	84	10	51	40	2	2	54	1.29
985532--985770	68	3.4	67	73	10	178	44	11	11	32	1.76
986450--986496	8	5.6	8	78	16	51	82	6	10	0	0.82
986469--986498	15	2.0	15	93	0	51	90	0	10	0	0.47
986450--986496	26	2.0	26	84	16	66	82	6	10	0	0.82
988493--988533	20	2.0	22	90	9	68	41	0	7	51	1.30
990987--991027	20	2.0	20	90	9	66	12	9	4	73	1.24
994222--994321	49	2.0	49	98	0	191	31	12	12	45	1.78
999840--999908	33	2.1	33	86	2	95	59	5	8	26	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1000902--1000943	21	2.0	21	100	0	84	38	19	14	28	1.90
1005318--1005366	16	3.1	16	79	5	55	51	22	8	18	1.72
1008812--1008851	19	2.1	19	95	0	71	40	2	0	57	1.12
1009612--1009807	84	2.3	84	83	0	230	34	9	19	36	1.84
1028432--1028460	15	1.9	15	100	0	58	27	0	0	72	0.85
1028744--1028776	8	4.2	8	92	3	50	12	0	6	81	0.85
1032412--1032437	2	13.0	2	100	0	52	50	0	0	50	1.00
1037422--1037452	3	10.3	3	100	0	62	67	0	0	32	0.91
1042921--1043069	74	2.0	75	98	1	291	29	28	20	22	1.98
1056597--1056776	49	3.7	48	79	8	213	26	19	32	21	1.97
1056597--1056787	50	3.9	49	80	6	219	26	20	31	20	1.97
1058385--1058415	15	2.1	15	93	0	53	51	6	6	35	1.53
1059552--1059608	30	1.9	29	85	3	78	29	3	0	66	1.08
1059550--1059615	29	2.2	30	78	2	80	31	3	0	65	1.08
1072156--1072192	7	5.3	7	100	0	74	72	0	0	27	0.84
1072156--1072213	14	4.2	13	81	18	57	68	0	0	31	0.89
1077276--1077314	18	2.1	19	85	4	53	58	2	0	38	1.12
1078810--1078992	91	2.0	91	91	0	294	37	15	18	28	1.91
1082467--1082701	117	2.0	118	99	0	463	48	4	9	37	1.55
1084265--1084344	39	2.1	39	85	0	106	50	13	15	21	1.78
1087355--1087415	29	2.1	29	82	11	72	40	8	4	45	1.55
1094459--1094501	22	2.0	22	86	9	61	58	6	11	23	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094511--1094555	22	2.0	22	86	4	63	77	11	4	6	1.09
1095623--1095668	23	2.0	24	86	4	67	63	6	6	23	1.43
1099454--1099496	19	2.3	20	80	11	56	16	4	13	65	1.43
1103468--1103523	24	2.3	25	81	9	71	35	0	1	62	1.06
1104841--1104908	30	2.4	28	84	13	95	64	0	1	33	1.02
1107957--1108030	29	2.6	27	83	10	94	13	25	35	25	1.93
1107978--1108040	29	2.2	29	91	0	99	11	25	38	25	1.89
1117619--1117674	20	2.8	20	81	5	69	51	7	1	39	1.40
1117738--1117787	20	2.5	21	81	12	61	34	2	16	48	1.57
1117738--1117781	19	2.2	20	84	12	54	36	2	13	47	1.56
1119268--1119303	18	2.0	18	88	0	54	38	27	0	33	1.57
1121002--1121037	18	2.0	18	88	0	54	38	27	0	33	1.57
1122736--1122771	18	2.0	18	88	0	54	38	27	0	33	1.57
1123074--1123102	14	2.1	14	100	0	58	34	44	13	6	1.71
1123741--1123796	20	2.8	20	81	5	69	51	7	1	39	1.40
1123860--1123909	20	2.5	21	81	12	61	34	2	16	48	1.57
1123860--1123903	19	2.2	20	84	12	54	36	2	13	47	1.56
1131129--1131224	41	2.3	41	87	0	129	36	26	18	18	1.94
1141342--1141377	18	2.0	18	88	0	54	38	27	0	33	1.57
1142849--1142892	23	2.0	23	81	4	54	29	11	4	54	1.56
1151643--1151674	16	1.9	17	93	6	57	75	3	18	3	1.08
1152575--1152804	106	2.2	107	97	0	435	39	3	22	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156044--1156147	50	2.1	50	98	0	199	37	15	11	35	1.84
1157736--1158060	162	2.0	162	90	2	510	29	17	9	43	1.80
1158161--1158206	23	2.0	23	83	8	58	43	8	6	41	1.61
1159612--1159645	13	2.6	13	86	13	52	73	5	5	14	1.21
1159613--1159644	12	2.6	12	95	5	55	71	6	6	15	1.26
1160447--1160494	3	16.0	3	82	0	60	29	4	4	62	1.32
1161748--1161786	19	2.1	19	95	0	69	38	15	5	41	1.69
1163754--1163806	16	3.3	15	75	12	52	3	30	0	66	1.10
1169245--1169562	169	1.9	169	80	3	381	32	17	21	28	1.96
1171335--1171379	18	2.4	18	82	13	56	44	0	4	51	1.21
1171615--1171748	44	3.0	43	70	10	126	55	14	3	26	1.56
1171590--1171723	44	3.0	45	70	11	139	54	13	4	27	1.58
1172553--1172605	18	3.0	17	80	20	56	54	0	0	45	0.99
1175160--1175263	50	2.1	50	98	0	199	37	16	11	34	1.85
1176814--1176875	33	1.9	32	90	6	99	24	17	6	51	1.69
1177613--1177662	21	2.4	22	83	6	59	16	8	18	58	1.62
1177679--1177711	15	2.1	16	88	5	50	42	0	0	57	0.98
1178227--1178265	19	2.1	19	95	0	69	35	17	0	46	1.49
1179475--1179604	46	2.8	45	85	5	172	29	24	10	35	1.89
1193948--1194238	145	2.0	146	99	0	575	32	21	17	29	1.96
1195870--1195926	18	3.2	17	78	7	60	40	3	5	50	1.42
1196162--1196232	22	3.2	22	65	21	58	57	12	5	23	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199473--1199506	15	2.2	16	89	5	52	61	0	2	35	1.11
1205217--1205270	2	27.0	2	96	0	99	48	0	51	0	1.00
1214595--1214632	18	2.2	18	90	9	62	71	2	5	21	1.19
1220632--1220675	18	2.4	19	81	14	56	70	0	15	13	1.17
1226988--1227020	3	11.0	3	93	0	57	30	3	33	33	1.73
1229854--1229891	18	2.1	19	90	9	62	26	10	5	57	1.53
1234252--1234285	3	11.3	3	93	0	59	67	2	0	29	1.05
1234475--1234516	21	2.0	21	90	0	66	33	19	14	33	1.91
1237397--1237472	32	2.4	32	86	2	100	26	19	9	44	1.80
1243777--1243900	58	2.1	58	100	0	248	37	6	16	39	1.75

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   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145