genome.fa.s10.2.7.7.80.10.50.1000.4.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: At_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   

This is table  4  of  172  ( 20562 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)
1014967--1015021	27	2.0	27	82	6	67	50	1	3	43	1.30
1026218--1026247	10	2.8	11	90	10	53	26	0	0	73	0.84
1026473--1026518	23	2.0	24	83	12	60	50	6	0	43	1.28
1038293--1038337	22	2.0	22	100	0	90	31	13	17	37	1.89
1048159--1048382	40	5.7	40	87	7	282	25	22	27	25	2.00
1048159--1048382	79	2.8	81	86	8	291	25	22	27	25	2.00
1048159--1048415	79	3.3	79	81	8	231	26	21	27	24	2.00
1056071--1056255	79	2.3	81	83	9	229	24	22	27	25	2.00
1056072--1056274	40	5.1	39	80	11	191	25	22	27	24	2.00
1056124--1056288	79	2.1	79	83	8	203	26	21	26	25	1.99
1060678--1060782	53	2.0	53	84	0	138	38	17	24	20	1.93
1063513--1063734	99	2.3	92	82	6	248	25	21	31	22	1.98
1063508--1063780	47	5.7	49	74	10	185	26	20	30	21	1.98
1067822--1067900	37	2.1	37	90	0	122	25	31	18	24	1.98
1068019--1068268	47	5.3	47	94	0	419	29	30	8	32	1.87
1072090--1072396	40	7.7	40	92	1	138	28	24	19	28	1.98
1072110--1072401	120	2.4	120	91	0	476	29	23	18	28	1.98
1072150--1072401	40	6.3	40	98	0	468	29	23	18	29	1.97
1076944--1077047	50	2.1	50	100	0	208	31	24	17	26	1.97
1085514--1085574	30	2.0	30	83	0	77	31	22	8	37	1.84
1093131--1093191	27	2.3	27	82	0	77	31	21	27	19	1.97
1094867--1094908	20	2.1	20	100	0	84	19	35	16	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106241--1106276	16	2.2	17	90	5	56	25	0	30	44	1.54
1109051--1109214	45	3.7	44	84	9	199	25	28	21	25	1.99
1113420--1113553	47	2.8	48	82	10	155	24	29	15	29	1.96
1113429--1113737	46	6.6	46	73	11	168	26	28	16	28	1.97
1120507--1120752	83	3.0	83	98	0	474	39	14	12	33	1.83
1123278--1123322	23	2.0	23	86	0	63	64	0	4	31	1.13
1126754--1126931	27	6.6	27	84	3	205	29	28	15	26	1.96
1126775--1126930	82	1.9	81	88	3	233	29	28	15	26	1.96
1139285--1139315	14	2.2	14	94	0	53	19	6	12	61	1.53
1139346--1139407	30	2.1	30	93	0	106	24	3	12	59	1.48
1139491--1139535	18	2.5	18	100	0	90	15	0	17	66	1.25
1139956--1139982	8	3.4	8	100	0	54	25	0	11	62	1.28
1141856--1141960	52	2.0	52	94	0	183	19	30	26	23	1.98
1150960--1150998	15	2.6	15	88	8	53	33	0	0	66	0.92
1159336--1159409	29	2.5	28	74	23	80	39	0	32	28	1.57
1159456--1159514	29	2.0	29	83	6	75	47	0	32	20	1.50
1163727--1163892	86	1.9	86	90	2	262	21	13	22	42	1.88
1163892--1163936	16	2.9	16	86	3	56	40	6	20	33	1.78
1164097--1164167	37	1.9	37	91	0	115	46	1	2	49	1.25
1164126--1164197	26	3.0	25	71	19	71	48	1	0	50	1.09
1164172--1164217	15	2.9	17	75	24	55	43	0	0	56	0.99
1164177--1164256	16	5.1	16	74	14	69	41	1	1	56	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1164177--1164263	32	2.7	33	83	11	103	40	1	1	57	1.14
1166713--1166745	15	2.2	15	94	0	57	33	3	18	45	1.65
1166788--1166837	26	1.9	26	91	0	82	42	14	12	32	1.82
1173577--1173617	22	1.9	21	85	5	55	63	2	2	31	1.20
1182718--1182946	113	2.0	113	94	0	404	25	17	24	32	1.96
1182893--1183031	60	2.3	60	82	6	156	28	19	26	25	1.99
1184141--1184195	26	2.0	28	89	6	87	60	7	10	21	1.55
1194203--1194319	31	3.8	30	72	13	103	53	5	1	39	1.33
1194201--1194317	61	1.9	61	91	0	189	53	5	1	39	1.33
1197411--1197457	17	2.8	17	75	15	53	42	21	14	21	1.88
1204176--1204817	312	2.1	312	92	1	1070	37	17	9	35	1.82
1206033--1206058	12	2.2	12	100	0	52	69	0	0	30	0.89
1218096--1218136	21	1.9	22	85	5	57	34	0	24	41	1.55
1218235--1218262	14	2.0	14	100	0	56	35	7	21	35	1.81
1220703--1220799	49	2.0	49	93	0	167	29	11	19	39	1.87
1223025--1223075	24	2.1	24	92	0	84	47	23	23	5	1.73
1223029--1223075	8	5.9	8	87	0	67	42	25	25	6	1.78
1223220--1223283	29	2.2	29	85	0	83	28	18	23	29	1.98
1227608--1227650	16	2.7	16	92	0	68	11	25	32	30	1.91
1227623--1227723	38	2.6	39	85	1	141	15	21	29	32	1.95
1228755--1228792	18	2.1	18	85	9	51	34	2	15	47	1.60
1235551--1235599	25	2.0	25	83	0	62	36	6	14	42	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235698--1235735	20	1.9	20	88	0	58	18	13	31	36	1.89
1241243--1241377	46	2.9	46	81	9	152	29	20	27	22	1.98
1242423--1242516	43	2.2	44	81	9	113	13	26	35	24	1.93
1242320--1242530	109	1.9	109	89	1	325	15	28	32	22	1.95
1255111--1255180	27	2.6	27	90	0	113	44	1	17	37	1.57
1263736--1263776	21	1.9	22	90	5	66	31	0	7	60	1.24
1270839--1270876	14	2.8	13	78	21	51	36	2	0	60	1.11
1270778--1270876	27	3.5	27	74	12	90	34	7	3	55	1.42
1271531--1271602	23	3.1	23	80	9	83	30	11	4	54	1.55
1278670--1278714	17	2.6	18	86	10	67	51	6	8	33	1.59
1278884--1279077	98	2.0	100	95	2	356	35	19	12	32	1.89
1279415--1279446	15	2.0	17	88	11	50	62	6	0	31	1.20
1279954--1279995	11	3.9	11	75	6	50	66	0	33	0	0.92
1280457--1280511	20	2.8	19	94	5	101	3	0	49	47	1.19
1281343--1282241	72	12.4	72	95	1	1367	32	24	17	25	1.97
1281338--1283675	144	15.9	144	80	10	2105	32	22	16	28	1.96
1281343--1283675	216	10.6	216	84	9	2638	32	22	16	28	1.96
1282188--1282294	53	2.0	53	90	0	169	25	28	17	28	1.98
1282116--1282369	125	2.0	125	89	2	391	29	25	16	28	1.97
1282240--1282664	72	5.9	72	96	1	769	29	22	17	30	1.96
1282680--1282833	73	2.1	73	84	7	204	32	18	16	31	1.94
1282764--1282930	86	1.9	86	83	4	212	35	19	15	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282846--1283281	77	5.8	76	86	6	541	32	21	15	30	1.94
1283149--1283562	152	3.0	135	77	14	387	31	22	16	30	1.95
1283285--1283588	71	4.1	73	85	8	393	33	20	15	31	1.93
1282850--1283588	151	5.1	143	81	10	596	32	21	15	31	1.94
1295424--1295468	17	2.6	18	89	10	76	51	8	8	31	1.64
1296070--1296101	15	2.0	17	88	11	50	62	6	0	31	1.20
1297109--1297159	21	2.4	21	90	0	75	3	0	29	66	1.09
1298619--1298796	27	6.6	27	84	3	205	29	28	15	26	1.96
1298640--1298795	82	1.9	81	88	3	233	29	28	15	26	1.96
1312271--1312452	40	4.6	40	93	0	294	21	28	21	27	1.99
1320914--1320956	21	2.1	21	91	4	70	32	20	25	20	1.97
1323004--1323335	48	6.9	48	76	6	287	27	18	30	23	1.98
1323016--1323330	96	3.3	96	82	3	330	27	18	30	23	1.97
1323007--1323335	143	2.3	144	81	6	373	27	18	30	23	1.98
1324833--1324883	24	2.2	23	89	6	77	15	29	5	49	1.68
1324841--1324888	24	2.0	25	95	4	89	16	22	4	56	1.58
1325320--1325347	10	2.8	10	100	0	56	28	10	10	50	1.71
1330449--1330501	27	2.0	26	85	3	70	16	26	20	35	1.94
1334263--1334347	39	2.2	40	89	2	127	22	27	29	21	1.99
1341769--1341888	48	2.6	46	80	5	125	29	21	14	35	1.93
1345159--1345219	29	2.1	28	87	3	86	34	3	14	47	1.61
1346726--1346758	17	2.0	17	88	5	50	69	9	15	6	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1348176--1348200	13	1.9	13	100	0	50	24	4	24	48	1.68
1353464--1353504	21	2.0	20	86	13	57	53	24	2	19	1.57
1358009--1358257	118	2.1	118	84	1	320	23	29	16	31	1.96
1360912--1360956	21	2.1	21	95	0	81	24	15	8	51	1.72
1369789--1369853	22	3.0	22	81	0	76	16	26	16	40	1.90
1371709--1371905	79	2.5	80	86	6	294	45	12	10	31	1.76
1371897--1371925	11	2.6	11	100	0	58	75	10	0	13	1.04
1376203--1376368	41	4.1	40	91	3	217	25	21	27	25	2.00
1395349--1395430	24	3.4	24	77	15	96	23	25	21	29	1.99
1395349--1395450	49	2.1	49	88	3	152	23	24	20	31	1.98

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   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172