genome.fa.s401.2.7.7.80.10.50.1000.10.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: Scaffold401
Parameters: 2 7 7 80 10 50 1000
Length:  1910012

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  10  of  13  ( 1464 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)
1416206--1416237	3	11.3	3	87	12	50	31	0	0	68	0.90
1416810--1416867	19	3.1	19	79	16	68	48	3	0	48	1.18
1420197--1420301	39	2.5	40	72	20	99	59	0	3	37	1.16
1420283--1420327	23	1.9	24	86	13	67	62	0	0	37	0.96
1420287--1420335	23	2.0	24	81	14	57	61	0	4	34	1.15
1420539--1420573	2	17.5	2	100	0	70	51	0	0	48	1.00
1423065--1423158	31	3.3	27	75	19	84	51	2	1	45	1.20
1423047--1423158	57	2.0	58	85	7	158	53	1	0	43	1.17
1423332--1423412	5	16.8	5	71	16	55	62	0	0	37	0.95
1423341--1423407	16	4.5	16	68	22	56	62	0	0	37	0.95
1423332--1423421	23	4.0	23	75	17	73	61	0	0	38	0.96
1423460--1423491	3	10.7	3	100	0	64	34	0	0	65	0.93
1424313--1424338	11	2.4	11	100	0	52	73	0	0	26	0.84
1424344--1424408	21	3.0	21	75	6	60	40	1	0	58	1.07
1424367--1424461	27	3.9	25	76	19	94	47	1	2	49	1.20
1424397--1424473	21	3.3	22	74	22	68	49	1	2	46	1.23
1424372--1424474	48	2.2	49	86	11	144	47	1	1	48	1.24
1424791--1424828	19	2.0	19	94	0	67	50	0	0	50	1.00
1424762--1424833	31	2.3	30	81	6	81	45	2	0	51	1.15
1425338--1425399	31	2.0	32	83	3	81	43	3	0	53	1.17
1427326--1427364	18	2.1	19	90	4	62	61	0	2	35	1.10
1427710--1427742	16	2.1	16	88	5	50	63	3	33	0	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1432603--1432679	41	1.9	41	89	2	120	38	16	11	32	1.85
1439612--1439756	75	1.9	75	81	2	175	28	14	15	42	1.86
1442074--1442130	16	3.9	16	71	21	61	45	1	0	52	1.11
1442085--1442129	10	4.8	10	76	15	51	46	0	0	53	1.00
1446822--1446923	45	2.3	45	79	15	115	46	0	0	52	1.07
1447019--1447060	16	2.6	17	85	11	61	35	0	0	64	0.94
1447087--1447147	21	2.7	23	79	18	67	42	0	0	57	0.98
1447636--1447676	19	2.2	19	86	8	57	41	0	0	58	0.98
1450540--1450582	11	4.0	10	80	14	50	74	0	0	25	0.82
1450530--1450585	20	2.8	20	83	2	78	71	0	0	28	0.86
1451304--1451383	29	2.6	30	80	11	83	46	0	1	52	1.08
1451430--1451458	10	3.0	10	95	5	51	48	0	0	51	1.00
1452278--1452316	18	2.2	18	85	0	51	43	0	0	56	0.99
1452699--1452745	20	2.4	19	86	13	60	63	2	2	31	1.18
1452902--1452960	29	2.0	30	83	9	77	52	1	5	40	1.33
1457642--1457698	27	2.1	27	90	0	87	45	22	3	28	1.69
1462772--1462841	36	1.9	36	85	5	97	40	20	18	21	1.92
1465212--1465274	27	2.4	27	77	17	69	47	0	0	52	1.00
1466439--1466463	1	25.0	1	100	0	50	0	0	0	100	0.00
1471190--1471214	2	12.5	2	100	0	50	52	48	0	0	1.00
1474300--1474370	24	3.0	22	79	18	81	54	0	2	42	1.14
1474479--1474554	13	5.6	13	72	20	50	31	1	3	63	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1474507--1474561	20	2.7	21	77	5	58	29	0	7	63	1.21
1476302--1476394	28	3.2	28	77	15	82	52	0	0	47	1.00
1476337--1476384	21	2.3	21	89	7	71	60	0	0	39	0.97
1478544--1478670	29	4.4	29	71	10	71	40	13	11	35	1.80
1478602--1478670	14	4.8	14	71	13	50	39	11	11	37	1.78
1478708--1478776	27	2.6	27	88	0	102	30	15	17	36	1.91
1480553--1480581	2	15.0	2	92	7	51	51	0	0	48	1.00
1482256--1482298	23	1.9	22	81	13	52	60	0	2	37	1.10
1486204--1486257	9	5.4	9	78	20	54	53	0	0	46	1.00
1486773--1486827	18	2.9	19	81	13	60	49	0	3	47	1.19
1487571--1487625	15	3.0	20	66	33	59	34	10	9	45	1.71
1487562--1487630	35	2.0	35	91	0	111	31	8	11	47	1.70
1488586--1488642	27	2.1	27	83	6	71	31	1	0	66	1.02
1489191--1489224	3	11.0	3	87	6	50	2	29	0	67	1.05
1489470--1489674	104	2.0	102	90	3	322	42	16	20	20	1.88
1495342--1495411	34	2.1	34	88	0	104	44	21	11	22	1.84
1497024--1497062	20	2.0	20	94	0	69	58	0	0	41	0.98
1500313--1500369	18	3.2	18	84	0	78	33	26	8	31	1.87
1504249--1504299	16	3.2	16	86	5	59	64	0	1	33	1.05
1504254--1504307	17	3.1	18	82	12	60	70	0	1	27	0.98
1504249--1504325	28	2.9	27	72	16	70	63	0	2	33	1.08
1504262--1504315	16	3.2	16	80	15	56	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504444--1504494	19	2.6	19	79	17	59	54	0	1	43	1.11
1505023--1505100	19	4.3	17	72	19	52	44	0	0	55	0.99
1505023--1505104	28	2.9	28	77	10	87	43	0	0	56	0.99
1507625--1507649	2	12.5	2	100	0	50	52	48	0	0	1.00
1508189--1508216	2	14.0	2	100	0	56	50	0	50	0	1.00
1514349--1514606	90	2.9	90	95	0	462	29	16	23	30	1.96
1515192--1515238	19	2.6	18	81	18	53	42	0	0	57	0.98
1518796--1518825	15	1.9	16	93	6	53	46	0	3	50	1.18
1519812--1519859	25	2.0	24	87	4	69	43	0	4	52	1.20
1521214--1521281	29	2.4	29	78	7	77	61	0	2	35	1.11
1521228--1521281	14	3.7	14	76	16	56	62	0	1	35	1.06
1521721--1521765	19	2.5	17	82	7	54	40	0	0	60	0.97
1521721--1521771	17	2.9	18	80	11	61	39	0	0	60	0.97
1524186--1524220	17	2.2	17	90	10	56	57	0	0	42	0.99
1524194--1524230	17	2.4	16	86	13	51	51	0	0	48	1.00
1524584--1524637	23	2.4	23	75	12	58	59	1	0	38	1.08
1524617--1524654	13	2.9	13	88	0	58	68	0	0	31	0.90
1525492--1525565	23	3.2	22	71	7	58	35	1	0	63	1.03
1526362--1526425	22	2.9	22	83	0	83	35	6	23	34	1.80
1526730--1526821	37	2.6	34	81	9	121	27	2	34	35	1.69
1526949--1527010	22	2.8	22	87	0	79	37	20	4	37	1.75
1530490--1530556	33	2.0	33	85	0	89	34	10	14	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1530510--1530534	13	1.9	13	100	0	50	36	16	16	32	1.90
1530597--1530621	13	1.9	13	100	0	50	32	16	16	36	1.90
1530630--1530749	52	2.3	52	92	0	204	35	18	17	29	1.94
1534325--1534399	20	3.8	20	78	0	87	34	13	12	40	1.81
1534325--1534402	40	2.0	39	87	2	111	34	12	12	39	1.82
1538428--1538642	34	6.4	34	89	1	272	27	8	23	40	1.84
1546176--1546246	27	2.6	27	88	6	99	22	7	23	46	1.76
1546323--1546368	20	2.3	20	88	0	65	13	45	4	36	1.63
1547491--1547709	34	6.5	33	86	4	271	25	7	25	41	1.82
1547491--1547707	101	2.2	100	89	3	337	25	7	25	41	1.82
1547491--1547709	68	3.3	67	85	4	300	25	7	25	41	1.82
1548223--1548317	7	12.4	8	68	24	53	38	0	0	61	0.96
1548229--1548295	15	4.5	15	74	22	52	38	0	0	61	0.96
1548229--1548300	31	2.4	29	82	15	85	38	0	0	61	0.96
1548291--1548327	18	2.0	20	89	10	60	40	0	0	59	0.97
1548288--1548335	20	2.5	18	76	10	51	35	0	0	64	0.94
1551451--1551531	33	2.4	35	77	12	87	46	0	1	51	1.08
1552389--1552423	11	3.2	11	87	0	52	0	17	0	82	0.66
1553028--1553091	26	2.5	26	82	9	80	60	1	0	37	1.06
1553022--1553084	14	4.8	13	74	12	58	57	1	0	41	1.08
1557405--1557480	12	6.0	13	77	18	72	42	0	0	57	0.98
1557405--1557464	24	2.4	24	89	10	86	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557426--1557494	24	2.8	23	80	12	66	43	0	0	56	0.99
1557725--1557795	28	2.6	28	82	6	76	49	0	0	50	1.00
1564635--1564659	5	5.0	5	100	0	50	80	0	0	20	0.72
1567323--1567360	19	2.0	19	85	10	51	60	5	5	28	1.40
1569982--1570012	10	3.1	10	95	0	53	67	0	32	0	0.91
1569982--1570021	16	2.6	16	84	4	55	67	0	30	2	1.04
1574551--1574605	18	3.1	18	77	12	60	50	0	1	47	1.11
1574848--1574881	15	2.3	15	89	0	50	52	2	0	44	1.16
1577090--1577128	20	1.9	21	89	5	62	48	0	0	51	1.00
1579264--1579313	24	2.1	24	96	0	91	36	18	14	32	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13