genome.fa.s16.2.7.7.80.10.50.1000.4.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: Gbar_D03
Parameters: 2 7 7 80 10 50 1000
Length:  50986338

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   

This is table  4  of  170  ( 20315 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)
1120762--1120917	43	3.9	42	75	19	138	1	28	0	69	0.99
1120761--1120954	36	5.4	34	75	15	133	1	30	0	68	0.99
1120832--1120933	33	3.1	33	77	16	104	0	30	0	68	0.96
1120867--1120921	22	2.5	23	80	8	62	1	29	0	69	0.99
1120909--1120965	27	2.1	27	90	6	89	0	40	0	59	0.97
1120791--1120949	80	2.0	79	86	7	225	1	30	0	67	0.98
1120896--1120956	13	4.8	13	76	7	54	0	36	0	63	0.94
1121081--1121142	26	2.3	28	94	5	110	50	0	9	40	1.35
1127397--1127440	20	2.3	20	88	7	65	45	9	0	45	1.35
1127948--1127972	12	2.1	12	100	0	50	68	0	8	24	1.16
1136640--1136705	31	2.1	31	83	10	82	43	9	12	34	1.73
1150081--1150123	22	2.0	22	81	9	52	18	6	16	58	1.60
1150122--1150272	58	2.6	56	77	9	142	18	16	21	43	1.88
1151054--1151296	89	2.8	86	77	10	251	38	17	7	36	1.79
1153992--1154297	156	2.0	153	84	5	404	26	24	27	21	1.99
1154306--1154335	12	2.5	12	88	0	51	6	16	50	26	1.70
1156455--1156494	21	1.9	21	85	10	55	45	0	5	50	1.23
1163567--1163752	75	2.5	73	81	9	212	39	20	16	22	1.92
1165216--1165263	16	2.9	16	75	3	51	8	10	2	79	1.02
1166165--1166215	10	4.6	11	79	15	61	78	0	13	7	0.96
1171731--1171764	16	2.2	16	89	5	52	23	8	5	61	1.47
1178142--1178172	7	4.4	7	95	0	53	32	25	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188959--1188985	8	3.4	8	100	0	54	22	0	0	77	0.76
1189684--1189793	30	3.8	28	72	10	87	44	15	4	35	1.67
1189659--1189786	59	2.2	60	80	8	138	42	15	4	36	1.68
1197907--1197961	27	2.0	28	89	3	85	50	5	10	32	1.60
1204019--1204066	21	2.3	21	100	0	96	10	12	12	64	1.50
1205323--1205384	24	2.8	22	81	13	65	25	1	6	66	1.25
1216754--1219816	265	11.6	262	91	2	4868	24	17	18	38	1.92
1216754--1219816	528	5.8	528	93	1	4962	24	17	18	38	1.92
1216521--1219816	793	4.2	791	94	2	5302	25	17	18	38	1.92
1219954--1220010	27	2.1	27	93	0	96	24	24	31	19	1.98
1220321--1220389	19	3.7	19	78	3	86	37	10	1	50	1.45
1220583--1220678	37	2.6	37	96	0	174	48	0	12	38	1.41
1220583--1220678	19	5.2	19	83	5	124	48	0	12	38	1.41
1221282--1221343	28	2.2	28	94	2	108	53	0	4	41	1.22
1232948--1233199	43	5.8	43	76	7	197	28	26	18	26	1.98
1233527--1233617	43	2.1	43	85	2	121	43	10	8	36	1.71
1237825--1237869	21	2.2	20	96	4	81	35	46	0	17	1.49
1238067--1238113	14	3.3	14	87	3	58	40	31	0	27	1.57
1238196--1238239	22	2.0	22	100	0	88	13	13	27	45	1.81
1238271--1238404	43	3.1	43	85	1	180	27	26	20	25	1.99
1238337--1238490	80	1.9	79	81	3	184	28	24	17	29	1.97
1238416--1238511	44	2.2	43	83	3	122	33	30	13	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240427--1240452	3	8.7	3	100	0	52	0	30	0	69	0.89
1241007--1241057	21	2.4	21	90	0	84	43	9	11	35	1.75
1243876--1243938	33	1.9	33	90	0	99	33	47	4	14	1.65
1243903--1243939	19	1.9	19	89	10	58	32	48	2	16	1.60
1244111--1244142	14	2.2	15	94	5	57	37	31	0	31	1.58
1244758--1244876	41	2.9	41	91	0	184	27	28	22	21	1.99
1244911--1245045	39	3.5	40	79	9	147	20	20	21	38	1.94
1245462--1245701	41	5.9	41	87	0	345	29	27	22	20	1.98
1245742--1245876	40	3.4	39	80	6	139	20	20	21	37	1.95
1245742--1245893	40	3.8	40	76	9	132	22	22	20	34	1.96
1247554--1247584	4	8.0	4	92	7	55	22	0	0	77	0.77
1247978--1248013	15	2.3	16	90	4	56	8	11	2	77	1.08
1247978--1248013	8	4.6	8	86	6	56	8	11	2	77	1.08
1253161--1253200	19	2.1	19	86	9	55	60	0	2	37	1.11
1253477--1253556	18	4.4	17	75	17	63	32	3	3	60	1.32
1253456--1253526	18	3.9	17	80	12	72	32	4	1	61	1.23
1253504--1253559	27	2.0	29	82	6	71	33	3	5	57	1.39
1253449--1253535	37	2.3	38	75	21	94	32	3	3	60	1.30
1254312--1254354	13	3.3	13	86	0	59	20	0	0	79	0.74
1257935--1257962	13	2.2	13	100	0	56	64	0	14	21	1.29
1259148--1259222	26	2.9	26	78	9	75	18	21	22	37	1.94
1265743--1266094	182	1.9	181	89	1	544	32	15	15	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266591--1266641	17	2.9	16	85	14	57	68	0	0	31	0.90
1271436--1271465	11	2.7	11	89	0	51	90	0	6	3	0.56
1272184--1272486	77	3.9	77	92	1	500	31	7	22	38	1.82
1278587--1278629	19	2.3	19	88	8	61	44	6	23	25	1.78
1283647--1283707	15	3.9	14	76	19	50	0	16	11	72	1.13
1291503--1291559	29	2.0	29	86	6	80	28	17	15	38	1.91
1291763--1291818	22	2.5	22	94	2	94	30	30	0	39	1.57
1291771--1291870	52	1.9	53	87	2	148	30	34	0	36	1.58
1291906--1291964	30	2.0	28	90	6	91	40	0	1	57	1.09
1291909--1291971	29	2.1	30	85	8	85	39	0	1	58	1.07
1293042--1293087	7	6.6	7	100	0	92	28	0	13	58	1.35
1293940--1293995	24	2.3	24	87	0	85	28	33	16	21	1.95
1294275--1294606	29	11.5	29	90	2	454	44	22	0	32	1.59
1297204--1297484	124	2.3	124	90	4	442	31	22	16	29	1.96
1298403--1298440	2	19.0	2	100	0	76	50	0	0	50	1.00
1299362--1299393	9	3.6	9	95	0	55	40	25	9	25	1.85
1299777--1299802	11	2.4	11	100	0	52	38	7	0	53	1.30
1299812--1299895	21	4.2	20	69	23	70	39	1	0	59	1.05
1302993--1303017	11	2.3	11	100	0	50	8	0	32	60	1.26
1310801--1310962	85	1.9	84	92	1	270	30	8	35	25	1.85
1311205--1311254	22	2.2	24	82	7	59	34	0	8	58	1.28
1311212--1311256	22	2.0	22	91	8	72	31	0	4	64	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316892--1316918	14	1.9	14	100	0	54	44	0	0	55	0.99
1317253--1317286	15	2.3	15	89	0	50	26	64	5	2	1.30
1323320--1323413	46	2.1	46	90	4	147	58	5	3	32	1.36
1331435--1331504	29	2.4	29	87	0	95	15	22	37	24	1.93
1331642--1331759	62	1.9	62	84	3	157	23	17	27	31	1.97
1341682--1341738	27	2.2	25	87	9	80	54	17	8	19	1.68
1342531--1342737	109	1.9	109	93	2	362	32	8	21	37	1.83
1345318--1345410	31	3.0	31	78	9	100	25	7	15	51	1.69
1346570--1346598	14	2.0	15	93	6	51	27	3	0	68	1.05
1346609--1346649	19	2.2	19	100	0	82	34	0	4	60	1.18
1353133--1353189	30	1.9	29	89	3	87	47	10	5	36	1.61
1358727--1358771	9	5.1	9	81	5	56	75	2	2	20	1.01
1363693--1363721	15	2.0	15	93	6	51	62	0	37	0	0.96
1364154--1364184	3	10.3	3	92	0	53	35	61	0	3	1.12
1373160--1373215	24	2.3	23	79	8	67	35	19	25	19	1.95
1373311--1373380	26	2.6	27	86	2	97	37	24	25	12	1.91
1374658--1374688	14	2.2	14	94	0	53	48	12	0	38	1.42
1376399--1376443	4	10.0	5	92	7	55	0	20	0	80	0.72
1377417--1377460	6	7.5	6	84	5	63	79	4	0	15	0.89
1381662--1381732	36	2.0	36	88	0	106	42	21	7	29	1.79
1381939--1382067	43	3.0	43	79	4	125	29	27	19	24	1.98
1386332--1386362	14	2.2	14	94	0	53	48	12	0	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398040--1398307	104	2.6	105	93	1	450	29	30	20	18	1.97
1398634--1398697	30	2.2	29	81	10	76	29	28	6	35	1.82
1398641--1398697	30	1.9	30	85	3	80	29	24	7	38	1.82
1400693--1400762	26	2.6	27	86	2	97	37	22	27	12	1.91
1408272--1408326	27	2.0	27	100	0	110	43	10	21	23	1.84
1414718--1414842	66	1.9	66	86	5	180	47	5	12	34	1.65
1420592--1420642	18	2.7	19	77	17	54	72	3	0	23	1.01
1421534--1421615	11	7.5	11	70	26	59	36	2	0	60	1.10
1421577--1421636	11	5.9	11	74	21	60	41	1	0	56	1.09
1421511--1421652	39	3.5	40	81	9	171	37	1	0	61	1.05

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