genome.fa.s1085.2.7.7.80.10.50.1000.6.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: Scaffold1085
Parameters: 2 7 7 80 10 50 1000
Length:  1639209

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 724 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)
1442321--1442346	13	2.0	13	100	0	52	30	15	15	38	1.88
1442302--1442380	33	2.4	33	93	0	131	34	18	10	36	1.85
1443301--1443367	20	3.3	20	89	8	100	20	14	19	44	1.86
1446345--1446382	20	1.9	20	100	0	76	42	13	15	28	1.85
1446403--1446452	20	2.5	20	86	0	64	40	16	14	30	1.87
1446349--1446524	71	2.5	71	83	2	210	41	14	15	28	1.86
1446475--1446545	20	3.5	20	78	0	79	42	15	8	33	1.77
1453347--1453411	34	1.9	34	100	0	130	27	12	18	41	1.86
1454787--1454833	23	2.0	23	91	0	76	57	8	12	21	1.62
1457411--1457465	20	2.8	20	88	5	76	41	12	16	29	1.85
1458511--1458579	24	2.9	24	80	0	84	24	18	8	47	1.77
1459043--1459114	36	2.0	36	86	7	103	31	11	29	27	1.91
1459081--1459140	32	2.0	31	83	9	79	31	13	25	30	1.93
1463081--1463111	16	1.9	16	93	0	53	51	3	9	35	1.51
1464128--1464225	24	4.0	24	82	2	115	29	22	5	42	1.75
1465181--1465295	51	2.3	51	86	1	151	40	17	3	39	1.67
1467175--1467204	13	2.3	13	94	0	51	43	6	13	36	1.70
1470996--1471072	16	4.5	17	71	22	54	67	1	3	27	1.16
1471441--1471656	103	2.1	103	94	0	378	46	12	25	16	1.81
1477232--1477273	16	2.6	16	85	11	59	85	2	9	2	0.77
1479803--1481226	42	33.7	42	72	6	789	17	28	19	34	1.94
1479798--1481228	85	16.9	85	81	2	1382	16	28	19	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1479789--1481257	169	8.7	169	80	2	1434	16	28	19	35	1.94
1482034--1482095	17	3.6	17	80	2	79	17	24	11	46	1.81
1486201--1486241	3	13.7	3	100	0	82	31	34	0	34	1.58
1487064--1487102	20	2.0	19	85	5	51	33	17	12	35	1.88
1487763--1487807	23	2.0	23	87	8	67	42	17	6	33	1.76
1487781--1487838	31	1.9	31	89	3	91	41	17	8	32	1.80
1489525--1489574	21	2.4	21	83	9	59	48	0	20	32	1.50
1489532--1489574	21	2.0	22	86	4	61	51	0	20	27	1.48
1489683--1489708	13	2.0	13	100	0	52	38	15	15	30	1.88
1495798--1495828	13	2.4	13	100	0	62	38	12	16	32	1.86
1495873--1495909	19	1.9	19	94	0	65	35	13	16	35	1.88
1497786--1497831	19	2.3	20	81	3	58	41	15	15	28	1.87
1499866--1499916	20	2.5	20	87	6	68	35	15	5	43	1.71
1500428--1500478	23	2.2	23	82	6	59	35	35	5	23	1.79
1506492--1506529	20	1.9	20	84	10	51	28	18	5	47	1.70
1509829--1509892	30	2.1	31	85	2	85	28	12	3	56	1.51
1511510--1511554	9	5.0	9	81	10	56	22	4	0	73	1.01
1511877--1511924	5	9.0	5	78	13	51	81	0	16	2	0.79
1511875--1511943	17	4.0	17	78	14	61	76	1	15	5	1.04
1511877--1511921	16	2.8	16	83	10	56	82	0	15	2	0.77
1511870--1511923	23	2.3	23	85	14	76	83	0	12	3	0.78
1511877--1511943	19	3.8	18	76	11	59	76	1	16	5	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512547--1512763	112	1.9	113	83	0	283	31	17	14	36	1.90
1513103--1513238	72	1.9	72	89	6	213	27	19	12	41	1.87
1513985--1514596	40	15.3	41	68	10	192	17	25	15	41	1.89
1513976--1514453	81	6.0	81	76	9	426	18	24	14	42	1.88
1514303--1514610	121	2.5	122	80	4	284	16	25	16	41	1.89
1514857--1515086	42	5.5	42	70	10	137	17	20	12	49	1.79
1514771--1515267	85	5.9	85	79	4	459	19	19	12	49	1.79
1514771--1515255	169	2.9	168	82	3	519	19	19	11	49	1.78
1515658--1515687	5	6.2	5	92	7	53	20	0	0	80	0.72
1515658--1515687	14	2.1	15	93	6	53	20	0	0	80	0.72
1517199--1517480	155	1.8	155	87	4	426	26	17	18	38	1.92
1517651--1518020	155	2.4	155	84	2	449	25	14	20	40	1.90
1528650--1528701	21	2.5	21	100	0	104	38	19	13	28	1.89
1528769--1528820	20	2.5	21	84	3	70	28	11	13	46	1.78
1529989--1530148	63	2.5	63	94	2	277	28	15	22	33	1.95
1532546--1532601	21	2.7	21	100	0	112	42	0	19	37	1.52
1538344--1538389	21	2.2	20	82	14	58	26	17	15	41	1.88
1540548--1540580	15	2.2	15	94	0	57	30	27	0	42	1.56
1542259--1542314	20	2.8	20	86	2	78	37	17	14	30	1.90
1543060--1543569	63	8.1	62	84	4	610	34	17	23	24	1.96
1544744--1544775	10	3.2	10	90	0	55	0	0	15	84	0.63
1548545--1549378	155	5.4	155	77	6	631	38	19	17	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1548626--1549208	311	1.9	312	80	4	703	39	19	16	25	1.92
1548783--1549367	156	3.8	153	78	8	392	39	18	17	24	1.92
1550882--1550908	13	2.1	13	100	0	54	40	7	14	37	1.74
1553462--1553489	13	2.2	13	100	0	56	39	17	14	28	1.89
1553569--1553620	16	2.9	19	81	16	58	53	21	0	25	1.45
1559604--1559634	13	2.4	13	94	0	53	35	12	16	35	1.87
1559584--1559650	33	2.0	33	88	11	102	32	17	13	35	1.89
1559679--1559735	19	2.9	19	86	5	69	35	15	15	33	1.90
1560924--1561276	163	2.1	167	88	5	513	49	6	10	32	1.64
1564123--1564167	22	2.0	22	91	0	72	24	37	2	35	1.68
1569059--1569133	20	3.8	20	80	3	80	40	12	13	34	1.81
1569056--1569133	40	2.0	39	87	2	111	39	12	12	34	1.82
1569689--1571299	630	2.6	627	91	3	2545	22	18	31	28	1.97
1569694--1571301	28	56.0	29	86	5	1978	22	18	31	28	1.97
1572528--1572587	1	60.0	1	79	0	57	0	1	10	88	0.59
1572531--1572587	24	2.3	24	91	5	89	0	1	10	87	0.61
1572518--1572587	10	7.5	10	74	19	62	1	2	10	85	0.76
1572518--1572588	9	7.8	9	77	15	67	1	2	11	84	0.79
1582293--1582337	23	2.0	23	81	0	54	71	8	6	13	1.31
1586570--1586644	20	3.8	20	80	3	80	40	12	13	34	1.81
1586567--1586644	40	2.0	39	87	2	111	39	12	12	34	1.82
1593401--1593456	28	2.0	28	86	6	78	51	12	1	33	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593413--1593516	54	1.9	55	90	2	165	46	10	3	39	1.57
1593412--1593527	55	2.1	54	83	1	151	46	11	3	38	1.56
1593569--1593624	20	2.8	20	86	2	78	48	14	5	32	1.66
1593567--1593731	66	2.5	67	84	4	199	47	12	5	33	1.65
1593567--1593756	66	2.8	67	80	6	188	48	11	5	34	1.62
1600706--1600760	19	2.8	19	88	5	74	34	16	16	32	1.91
1600745--1600771	13	2.1	13	100	0	54	40	14	14	29	1.86
1600726--1600790	32	2.0	32	90	3	103	40	16	16	26	1.90
1601308--1601342	17	2.1	17	89	5	54	31	34	0	34	1.58
1602588--1602639	16	2.9	19	81	16	58	53	21	0	25	1.45
1607939--1607973	17	2.0	18	88	5	54	62	5	11	20	1.48
1608604--1608656	20	2.7	20	88	11	74	30	18	13	37	1.89
1608686--1608739	19	2.7	20	85	5	65	35	16	14	33	1.90
1608712--1608773	33	1.9	33	86	3	90	38	17	16	27	1.91
1611914--1611960	21	2.3	20	82	13	60	40	14	19	25	1.90
1612954--1613022	32	2.2	32	97	0	129	37	18	11	31	1.87
1612979--1613003	13	1.9	13	100	0	50	32	16	16	36	1.90
1612960--1613022	19	3.6	19	74	24	75	36	19	12	31	1.89
1615161--1615205	23	2.0	24	82	8	58	40	22	8	28	1.84
1615723--1615747	13	1.9	13	100	0	50	32	16	20	32	1.94
1619523--1619565	21	2.0	21	100	0	86	32	23	0	44	1.54
1622716--1622776	11	5.2	11	73	11	50	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1622716--1622777	24	2.6	24	80	19	69	66	0	0	33	0.92
1622702--1622779	40	1.9	41	84	2	104	61	0	0	38	0.96
1622858--1622897	18	2.2	18	90	0	62	70	0	0	30	0.88
1630556--1630615	29	2.1	28	82	14	70	28	5	6	60	1.43
1630539--1630615	31	2.6	29	82	13	79	32	3	5	58	1.38
1630572--1630641	29	2.3	29	82	7	77	30	4	10	55	1.52
1631219--1631264	14	3.1	14	84	6	56	50	2	2	45	1.26
1632005--1632062	22	2.7	21	84	12	66	63	1	0	34	1.04
1632004--1632062	21	2.7	21	80	17	66	62	1	0	35	1.05
1634704--1634739	17	2.1	17	89	0	54	0	16	0	83	0.65

Tables:   1   2   3   4   5   6   7