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: chr2
Parameters: 2 7 7 80 10 50 1000
Length:  41236440

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   

This is table  3  of  106  ( 12678 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)
1128440--1128513	23	3.3	20	72	22	67	24	0	0	75	0.80
1132300--1132584	150	1.9	149	100	0	561	31	12	5	49	1.64
1135538--1136311	269	2.9	268	90	0	1179	29	20	14	35	1.92
1135538--1136463	269	3.4	269	85	2	815	30	19	14	35	1.91
1139560--1139840	142	2.0	141	96	3	521	39	8	4	46	1.56
1145753--1145831	39	2.0	39	95	0	140	56	6	11	25	1.57
1145820--1145868	23	2.1	22	81	11	53	65	0	8	26	1.20
1147056--1147102	22	2.1	22	88	7	69	57	2	2	38	1.23
1147554--1147596	15	2.8	15	89	3	68	76	0	0	23	0.78
1147841--1147891	27	2.0	25	85	14	68	62	0	0	37	0.95
1152013--1152069	29	2.0	29	86	6	80	36	10	3	49	1.55
1153577--1155992	468	5.2	466	82	7	2585	43	11	13	31	1.79
1153577--1155992	937	2.6	930	81	6	2688	43	11	13	31	1.79
1155754--1156249	257	1.9	256	95	0	886	45	10	12	31	1.76
1157828--1157889	31	2.0	32	87	3	90	38	1	0	59	1.07
1157973--1158032	31	2.0	30	83	9	77	55	0	10	35	1.34
1158374--1158430	21	2.6	22	80	2	71	47	19	8	24	1.77
1164688--1164783	31	3.0	32	77	14	85	42	0	2	55	1.11
1164726--1164797	29	2.4	31	84	11	96	41	1	0	56	1.07
1165062--1165122	30	2.0	30	93	6	106	55	3	3	37	1.32
1172159--1172367	66	3.2	64	80	4	163	29	26	21	22	1.99
1172195--1172794	33	18.2	33	77	6	335	30	29	18	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172544--1172915	33	11.3	33	78	4	295	30	28	19	21	1.97
1172786--1172865	31	2.5	33	78	10	94	36	22	18	22	1.95
1196729--1196772	15	3.0	14	80	9	52	56	0	0	43	0.99
1211600--1211812	91	2.3	94	84	7	271	38	14	7	39	1.74
1212743--1212807	17	3.7	18	82	10	89	40	1	10	47	1.48
1213969--1214171	40	5.0	40	81	4	228	58	19	2	20	1.51
1213969--1214171	81	2.5	81	82	6	230	58	19	2	20	1.51
1214434--1215074	328	2.0	319	87	4	912	43	7	7	41	1.60
1215148--1215194	17	2.9	17	84	6	53	51	0	4	44	1.21
1215467--1215508	21	2.0	22	86	13	61	42	0	4	52	1.22
1215466--1215546	27	2.9	27	76	18	78	45	0	2	51	1.14
1215520--1215563	15	2.8	16	75	10	54	47	0	0	52	1.00
1228116--1228220	33	3.3	33	75	20	123	33	25	20	20	1.97
1235690--1235767	27	2.9	27	75	7	77	35	16	16	30	1.92
1246067--1246134	30	2.4	27	79	18	68	2	17	1	77	0.96
1246455--1246499	23	1.9	24	90	4	74	40	31	20	8	1.83
1246836--1246881	23	1.9	25	82	8	60	36	10	4	47	1.58
1268123--1268222	51	2.0	51	95	0	182	30	16	23	31	1.96
1269670--1269709	21	1.9	21	85	10	55	37	0	5	57	1.21
1269726--1269760	15	2.3	15	90	5	52	34	0	0	65	0.93
1271439--1271494	2	28.0	2	100	0	112	50	0	0	50	1.00
1285221--1285251	16	1.9	16	93	0	53	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301407--1301473	19	3.4	19	78	15	66	50	0	1	47	1.10
1301413--1301443	16	1.9	16	93	0	53	48	0	3	48	1.17
1301411--1301501	22	4.4	22	76	14	88	53	1	1	43	1.15
1301407--1301500	41	2.3	42	83	9	113	52	1	1	45	1.15
1301652--1301713	33	1.9	32	86	3	88	67	1	0	30	1.00
1301843--1301912	28	2.5	28	88	4	88	45	1	1	51	1.18
1306896--1306943	24	2.0	25	84	12	64	12	12	8	66	1.44
1313284--1313318	18	1.9	18	88	0	52	51	0	0	48	1.00
1317447--1317481	18	2.0	17	94	5	61	40	11	5	42	1.65
1319972--1321224	627	2.0	626	99	0	2488	32	17	16	33	1.92
1321789--1321847	16	3.6	16	80	15	59	76	0	0	23	0.79
1324780--1324842	28	2.2	28	88	0	90	28	6	19	46	1.74
1335273--1335332	29	2.1	29	100	0	120	43	15	18	23	1.87
1341864--1341918	21	2.7	20	81	10	58	61	0	1	36	1.06
1346241--1346436	75	2.6	75	88	1	286	30	34	20	14	1.93
1355576--1355608	11	3.1	11	82	8	50	18	18	3	60	1.49
1361149--1361175	2	13.5	2	100	0	54	0	51	0	48	1.00
1361212--1361238	2	13.5	2	100	0	54	0	51	0	48	1.00
1361147--1361267	63	2.0	61	96	3	224	19	28	6	44	1.75
1366921--1366974	25	2.3	23	81	12	67	33	1	1	62	1.16
1367805--1367940	23	6.0	23	83	4	159	38	24	11	25	1.88
1367937--1368084	26	6.0	25	75	14	137	41	21	9	27	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367937--1368119	98	1.9	99	85	5	255	40	21	10	26	1.86
1373356--1373403	24	2.0	24	84	8	62	20	2	52	25	1.58
1373347--1373393	24	2.0	24	86	0	67	14	0	55	29	1.40
1373428--1373469	15	2.8	15	89	7	59	0	11	30	57	1.35
1373436--1373475	12	3.0	13	89	10	55	0	15	30	55	1.41
1377812--1377856	23	2.0	22	86	4	63	44	2	13	40	1.56
1378712--1378763	5	11.0	5	78	12	56	78	0	17	3	0.89
1378719--1378764	22	2.0	23	87	4	67	82	0	13	4	0.81
1381768--1381810	22	1.9	23	90	4	70	53	0	46	0	1.00
1383905--1383995	48	1.9	47	90	2	146	34	4	6	54	1.46
1386449--1386569	51	2.4	51	92	0	197	14	9	26	48	1.75
1389244--1389285	3	14.0	3	100	0	84	66	0	33	0	0.92
1390163--1390302	31	4.6	31	81	2	167	53	13	7	25	1.65
1390163--1390301	61	2.3	61	98	0	269	53	13	7	25	1.65
1392596--1392654	2	29.0	2	96	3	109	49	0	49	1	1.11
1392700--1392745	2	23.5	2	95	4	85	50	0	50	0	1.00
1402164--1402211	23	2.0	24	84	4	62	35	2	2	60	1.20
1422518--1422588	35	2.2	33	85	10	92	28	0	12	59	1.34
1432258--1432356	29	3.4	29	80	2	101	27	23	14	35	1.93
1432311--1432434	28	4.4	28	78	10	103	29	16	15	38	1.90
1432972--1433008	19	1.9	19	88	0	56	54	2	24	18	1.57
1433870--1433928	29	2.0	29	100	0	118	15	10	30	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437424--1437451	14	2.0	14	100	0	56	21	7	14	57	1.61
1445227--1445333	2	55.0	2	76	15	73	54	1	1	41	1.22
1445643--1445668	13	2.0	13	100	0	52	30	0	0	69	0.89
1450378--1450414	17	2.2	17	90	0	56	45	5	8	40	1.56
1458184--1458228	16	3.1	14	82	17	56	73	0	26	0	0.84
1458191--1458225	17	2.1	17	94	5	63	74	0	25	0	0.82
1464680--1464722	15	3.1	15	74	19	56	62	6	2	27	1.33
1467994--1468038	23	2.0	23	86	4	65	55	8	8	26	1.60
1469195--1469439	127	1.9	127	89	1	384	37	8	11	42	1.72
1474062--1474098	17	2.2	17	90	0	56	45	5	8	40	1.56
1479392--1479480	29	3.1	29	98	0	169	12	26	40	20	1.88
1486480--1486533	25	2.2	25	96	0	99	16	25	11	46	1.80
1490890--1490952	27	2.3	27	83	5	72	60	1	3	34	1.22
1491720--1491775	29	1.9	30	85	10	80	21	5	7	66	1.37
1492083--1492160	40	2.0	40	94	0	138	17	23	24	34	1.96
1493270--1493307	17	2.2	17	90	0	58	44	5	7	42	1.56
1498614--1498970	181	2.0	179	99	0	696	36	8	14	39	1.78
1499131--1499168	19	2.0	19	100	0	76	57	5	21	15	1.57
1500691--1500736	3	15.3	3	82	8	58	36	0	0	63	0.95
1501296--1501339	2	22.5	2	86	13	65	47	0	2	50	1.13
1501296--1501339	11	4.0	11	93	0	70	47	0	2	50	1.13
1509277--1509313	17	2.2	17	90	0	56	45	5	8	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1510684--1510721	17	2.2	17	90	0	58	44	5	7	42	1.56
1515581--1515635	28	2.0	27	86	6	76	40	3	5	50	1.43
1520142--1520221	22	3.5	22	73	14	65	47	1	0	51	1.08
1522474--1522527	25	2.2	25	86	6	74	48	11	3	37	1.57
1528006--1528042	3	12.3	3	100	0	74	32	0	0	67	0.91
1528688--1528726	8	4.9	8	84	12	53	53	0	0	46	1.00
1530749--1530877	69	1.9	69	88	0	195	35	6	36	21	1.79
1543266--1543291	4	6.5	4	100	0	52	26	0	0	73	0.84
1561174--1561215	22	2.0	21	85	4	57	66	9	2	21	1.32
1573032--1573073	5	8.4	5	82	17	52	0	19	0	80	0.70

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