genome.fa.s21.2.7.7.80.10.50.1000.4.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: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  55873576

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   173   174   175   176   
          177   178   179   180   181   182   

This is table  4  of  182  ( 21791 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)
1081973--1082097	35	3.5	35	78	1	124	39	33	11	16	1.84
1083318--1083394	26	3.0	26	79	7	84	40	24	19	15	1.90
1086443--1086567	35	3.5	35	78	1	124	39	33	11	16	1.84
1087788--1087864	26	3.0	26	79	7	84	40	24	19	15	1.90
1088054--1088117	26	2.5	26	80	10	76	37	25	21	15	1.93
1088150--1089024	27	32.5	27	80	7	809	25	15	18	39	1.90
1088177--1089025	215	3.9	215	83	4	1068	25	15	19	39	1.91
1090740--1091010	28	9.6	28	95	1	427	25	13	27	33	1.93
1096781--1096836	27	2.1	27	83	6	69	30	12	25	32	1.92
1098364--1098439	27	2.8	26	92	7	125	27	15	18	38	1.91
1120145--1120406	39	6.7	40	87	7	337	25	22	27	24	2.00
1122841--1122865	10	2.5	10	100	0	50	8	0	12	80	0.92
1126601--1126640	20	2.0	20	90	0	62	27	10	12	50	1.72
1126586--1126652	34	1.9	35	84	3	91	34	8	10	46	1.70
1126809--1126859	26	2.2	24	78	21	56	60	5	0	33	1.21
1128307--1129230	462	2.0	463	98	0	1805	40	18	17	23	1.91
1137033--1137083	21	2.4	21	86	3	66	41	27	9	21	1.84
1139948--1140017	30	2.3	30	85	0	86	20	25	38	15	1.92
1158087--1159091	500	2.0	501	99	0	2003	31	18	14	35	1.91
1167163--1167202	21	1.9	21	89	0	62	80	2	15	2	0.93
1167162--1167205	16	2.8	16	82	0	52	79	2	15	2	0.93
1170877--1170945	35	2.0	35	91	0	111	30	24	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173947--1174011	27	2.4	27	84	5	78	18	15	30	35	1.92
1174759--1174785	14	1.9	14	100	0	54	88	3	7	0	0.61
1175863--1176124	39	6.7	40	87	7	337	25	22	27	24	2.00
1185050--1185172	62	2.0	61	95	0	210	30	17	16	34	1.92
1193635--1193670	18	2.0	18	94	0	63	38	0	19	41	1.52
1202797--1202841	19	2.4	19	96	0	81	15	26	28	28	1.96
1205901--1205930	15	2.1	14	93	6	51	40	13	13	33	1.83
1212464--1212524	22	2.8	21	70	9	50	37	21	22	18	1.94
1212529--1212625	32	3.0	32	74	5	106	37	23	20	18	1.94
1212658--1212725	27	2.5	27	80	4	75	36	22	22	19	1.95
1212794--1212875	24	3.4	24	80	6	94	45	21	8	24	1.80
1212832--1212903	24	3.0	24	89	0	108	43	22	8	26	1.81
1212969--1213064	27	3.6	27	83	4	115	29	22	15	32	1.95
1214704--1215049	178	1.9	178	100	0	692	30	23	16	28	1.96
1216260--1216467	40	5.2	40	96	0	353	22	27	19	30	1.98
1216878--1216932	27	2.0	27	96	0	101	32	27	7	32	1.84
1220384--1220442	20	3.0	20	76	0	55	33	22	33	10	1.87
1221343--1221367	12	2.1	12	100	0	50	8	28	24	40	1.83
1228231--1228434	60	3.4	59	79	8	214	21	23	14	40	1.90
1228267--1228580	30	10.5	30	77	8	230	23	22	13	39	1.90
1228393--1228471	29	2.7	30	82	4	106	18	25	13	41	1.88
1228300--1228579	119	2.3	118	78	8	298	24	23	13	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228245--1228585	149	2.3	149	78	8	404	22	22	13	40	1.89
1228500--1228591	30	3.1	30	93	0	148	25	20	14	40	1.90
1236535--1236662	50	2.5	51	86	3	170	22	18	28	30	1.98
1236672--1236766	45	2.1	45	86	0	136	27	16	23	32	1.96
1242260--1242354	39	2.4	40	82	1	102	36	15	26	21	1.93
1242292--1242369	40	2.0	40	89	0	120	28	15	26	29	1.96
1250275--1250317	20	2.2	20	86	0	59	34	23	32	9	1.87
1256118--1256158	20	2.0	20	86	9	57	14	7	14	63	1.50
1258124--1258226	53	1.9	53	94	0	179	39	22	3	33	1.72
1260088--1260290	104	2.0	104	96	0	379	27	14	19	38	1.91
1276582--1276606	13	1.9	13	100	0	50	64	16	0	20	1.30
1277279--1277436	48	3.3	48	86	0	217	48	14	13	22	1.79
1278012--1278097	42	2.0	43	88	2	129	36	24	15	24	1.94
1280764--1280903	50	2.8	51	87	2	194	30	28	16	24	1.96
1288448--1288736	51	5.7	50	76	5	258	31	27	15	25	1.95
1288499--1288735	102	2.3	102	98	0	456	32	27	15	24	1.95
1296450--1296475	12	2.2	12	100	0	52	42	7	26	23	1.81
1303139--1303184	21	2.3	20	78	14	51	30	6	17	45	1.73
1308199--1308439	50	4.8	50	81	2	254	21	27	22	28	1.99
1318650--1318717	22	3.4	22	69	26	69	32	27	20	19	1.97
1318667--1318733	16	3.8	16	75	21	71	28	29	23	17	1.97
1318650--1318740	38	2.4	38	96	3	166	34	27	19	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1321194--1321866	335	2.0	335	92	0	1130	30	24	14	30	1.94
1329581--1329678	38	2.6	38	88	0	151	33	26	20	19	1.96
1329587--1329774	98	1.9	98	88	0	286	35	25	20	19	1.96
1331543--1331579	18	2.0	19	89	5	58	51	0	43	5	1.24
1333259--1333326	35	1.9	35	100	0	136	14	20	17	47	1.83
1351921--1352057	69	2.0	68	98	0	256	16	22	21	39	1.91
1352835--1353144	40	7.8	40	95	0	521	24	19	28	28	1.99
1353132--1353157	13	2.0	13	100	0	52	23	23	30	23	1.99
1353092--1353193	53	1.9	53	85	0	141	26	21	25	26	2.00
1353149--1353243	40	2.4	40	81	0	109	25	23	25	26	2.00
1353052--1353230	93	1.9	93	82	0	223	25	20	27	26	1.99
1366156--1366213	24	2.4	23	75	11	62	43	15	20	20	1.88
1368154--1368192	20	2.0	20	85	5	53	56	5	7	30	1.49
1372159--1372225	27	2.5	27	82	4	82	14	29	22	32	1.94
1380248--1380290	22	2.0	22	90	9	70	67	0	2	30	1.03
1380683--1380720	12	3.2	12	82	17	53	34	0	0	65	0.93
1389262--1389360	43	2.4	42	83	5	121	30	30	17	22	1.96
1389281--1389365	43	2.0	43	90	0	134	25	31	17	24	1.97
1391038--1391099	29	2.1	30	96	3	117	48	12	9	29	1.73
1394465--1394564	7	14.0	7	74	12	78	38	40	0	22	1.54
1394465--1394559	35	2.6	36	80	6	104	36	40	0	23	1.55
1394465--1394563	28	3.5	27	77	10	92	38	39	0	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1394617--1394668	14	3.7	14	76	0	50	48	23	0	28	1.51
1394833--1395034	41	4.9	41	85	3	237	21	22	23	33	1.98
1398768--1398836	24	2.9	24	84	0	93	40	5	5	47	1.51
1400438--1400476	10	3.9	10	80	12	53	69	2	7	20	1.26
1400504--1400536	13	2.8	12	90	9	50	51	12	0	36	1.39
1402037--1402089	19	2.8	19	75	13	56	77	0	5	16	0.96
1402989--1403039	25	2.0	25	100	0	102	45	15	7	31	1.75
1409756--1409795	10	4.0	10	81	12	55	67	2	7	22	1.28
1409822--1409854	13	2.8	12	90	9	50	51	12	0	36	1.39
1411956--1412005	24	2.2	21	80	19	57	54	6	2	38	1.37
1411961--1412015	25	2.2	26	90	6	87	52	7	3	36	1.47
1421451--1421500	24	2.1	23	81	7	55	54	10	2	34	1.45
1424215--1424254	16	2.4	17	88	12	57	80	0	2	17	0.83
1429549--1429668	48	2.5	48	83	2	145	27	21	15	35	1.93
1431338--1431463	29	4.4	28	78	12	123	26	34	13	26	1.93
1431338--1431472	28	4.8	28	77	12	123	25	34	14	25	1.93
1440173--1440305	28	4.7	29	75	9	114	30	30	12	26	1.93
1453586--1453757	93	1.8	93	93	2	301	27	29	21	21	1.99
1453578--1453753	46	3.8	46	78	12	207	28	28	21	21	1.98
1457169--1457281	57	2.0	57	98	1	219	69	14	1	14	1.26
1457259--1457314	6	9.3	6	98	0	103	69	14	0	16	1.19
1462956--1463182	50	4.8	47	75	15	175	23	31	18	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1468491--1468526	18	2.0	18	100	0	72	27	22	22	27	1.99
1469319--1469536	90	2.4	92	85	2	296	19	22	14	43	1.87
1469467--1469538	21	3.2	21	67	27	58	25	22	11	41	1.86
1469319--1469539	46	4.8	46	88	3	268	19	23	14	42	1.87
1475079--1475211	51	2.7	49	84	2	158	27	20	24	27	1.99
1475077--1475258	49	3.7	49	83	1	193	26	18	25	29	1.98
1478274--1478342	30	2.3	30	82	7	88	7	15	18	57	1.61
1478274--1478342	15	4.7	15	82	8	79	7	15	18	57	1.61
1480482--1480706	49	4.5	49	88	2	288	25	16	28	29	1.97
1484667--1485393	241	3.0	241	95	0	1323	34	17	14	33	1.90

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   173   174   175   176   
          177   178   179   180   181   182