genome.fa.s139.2.7.7.80.10.50.1000.10.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: Scaffold139
Parameters: 2 7 7 80 10 50 1000
Length:  1720190

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

This is table  10  of  11  ( 1306 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)
1474115--1474268	72	2.2	72	86	1	211	48	10	14	26	1.77
1474131--1474268	71	1.9	72	88	1	206	49	10	15	25	1.75
1474241--1474351	40	2.8	40	90	2	170	40	13	14	31	1.85
1484463--1484517	11	4.7	12	84	8	60	87	10	0	1	0.63
1484460--1484517	20	2.9	20	82	12	75	86	12	0	1	0.65
1484463--1484517	16	3.4	16	85	7	76	87	10	0	1	0.63
1485729--1485981	57	4.4	56	76	10	197	31	29	16	22	1.96
1485852--1486037	32	6.1	31	76	13	140	31	29	15	23	1.95
1485826--1486175	60	5.9	61	75	12	221	30	29	16	23	1.97
1485869--1486175	92	3.4	91	82	7	369	29	29	16	23	1.96
1485728--1486150	28	14.5	28	75	9	260	30	29	16	23	1.96
1486240--1486338	49	2.0	49	88	0	144	17	33	18	31	1.94
1498336--1498448	51	2.2	51	100	0	226	38	17	19	23	1.93
1498430--1498468	20	1.9	21	94	5	71	41	20	15	23	1.90
1500187--1500433	97	2.5	97	89	0	377	30	13	28	27	1.94
1502640--1502694	20	2.8	20	85	0	74	41	12	10	34	1.78
1502591--1502746	71	2.2	73	89	2	235	44	12	14	28	1.81
1503347--1503381	10	3.5	10	84	0	52	40	8	31	20	1.82
1504251--1504335	42	2.0	43	97	2	163	29	25	9	35	1.88
1505284--1505348	13	5.0	13	82	0	76	35	15	12	36	1.85
1505284--1505344	26	2.3	26	94	0	104	34	16	11	37	1.85
1508987--1509049	32	1.9	33	87	9	94	28	17	12	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1509014--1509070	19	2.9	19	86	2	78	31	17	15	35	1.92
1511349--1511386	19	2.0	19	100	0	76	63	10	15	10	1.52
1514610--1514684	20	3.8	20	85	3	98	29	17	12	41	1.85
1517032--1517103	28	2.6	28	86	0	99	23	29	19	27	1.98
1516979--1517181	107	1.9	106	82	8	250	28	29	13	29	1.94
1517060--1517337	79	3.5	79	79	5	285	27	26	14	31	1.94
1519533--1519582	21	2.4	22	83	9	61	32	20	0	48	1.50
1519584--1519639	20	2.5	23	75	13	55	48	17	5	28	1.69
1520834--1520870	15	2.5	15	90	0	56	0	56	0	43	0.99
1522010--1522034	13	1.9	13	100	0	50	32	12	16	40	1.84
1521991--1522059	33	2.1	33	88	0	102	31	11	18	37	1.87
1522894--1522928	10	3.5	10	92	0	52	45	2	25	25	1.67
1523106--1523149	22	2.0	22	86	4	63	34	9	6	50	1.61
1524235--1524496	128	2.1	127	92	0	434	45	21	8	24	1.80
1525363--1525395	2	16.5	2	100	0	66	51	0	0	48	1.00
1525878--1525944	28	2.4	28	87	9	109	50	0	0	49	1.00
1525898--1525973	36	2.1	36	90	4	118	51	0	0	48	1.00
1526125--1526171	13	3.4	14	83	11	53	29	0	0	70	0.88
1528259--1528288	16	1.9	15	93	6	51	60	0	0	40	0.97
1528588--1528652	19	3.0	21	71	22	53	47	0	0	52	1.00
1528589--1528655	23	2.8	24	80	13	59	49	0	0	50	1.00
1528645--1528692	12	3.8	13	83	10	55	75	0	4	20	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1528620--1528665	23	2.0	24	83	12	60	60	0	0	39	0.97
1529576--1529762	93	2.0	96	91	7	310	19	2	19	59	1.48
1532908--1532943	2	18.0	2	100	0	72	0	50	0	50	1.00
1535764--1535792	2	15.0	2	92	7	51	48	0	0	51	1.00
1539894--1539973	38	2.1	38	86	2	108	47	1	2	48	1.23
1540066--1540109	12	3.8	12	78	6	54	56	0	0	43	0.99
1540069--1540114	23	2.0	23	91	4	76	60	0	0	39	0.97
1540069--1540141	28	2.8	28	84	12	84	57	2	1	38	1.22
1540306--1540356	22	2.3	22	82	0	66	13	17	33	35	1.89
1540329--1540404	16	4.8	16	80	6	91	11	17	30	40	1.85
1540289--1540407	38	3.3	36	74	18	104	11	18	31	38	1.87
1541375--1541428	21	2.7	20	86	13	76	31	14	16	37	1.89
1541497--1541566	20	3.5	20	76	7	61	28	14	20	37	1.91
1543997--1544032	13	2.8	13	95	0	63	33	16	16	33	1.92
1544465--1544530	19	3.8	19	77	22	90	33	12	18	36	1.88
1544466--1544528	32	2.0	32	100	0	126	33	12	19	34	1.89
1544485--1544509	13	1.9	13	100	0	50	36	16	16	32	1.90
1552379--1552430	20	2.5	21	81	9	63	26	17	17	38	1.92
1552419--1552444	13	2.0	13	100	0	52	30	15	15	38	1.88
1553386--1553415	16	1.9	15	93	6	51	33	10	3	53	1.51
1555485--1555527	23	2.0	23	86	9	63	30	16	9	44	1.79
1555973--1556055	21	4.0	21	75	0	94	50	6	10	32	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1555958--1556049	42	2.2	42	88	1	132	47	6	9	35	1.62
1556186--1556238	21	2.5	21	87	0	79	49	11	9	30	1.70
1556320--1556357	19	2.0	19	94	0	67	47	10	13	28	1.76
1557292--1557330	20	2.0	19	95	5	69	35	23	10	30	1.88
1557353--1557405	21	2.6	21	79	8	56	35	15	16	32	1.90
1558037--1558109	20	3.6	20	81	3	101	35	13	19	31	1.91
1558055--1558130	21	3.7	21	80	3	100	42	11	17	28	1.84
1558037--1558130	41	2.3	41	98	0	179	39	12	18	29	1.88
1558169--1558194	13	2.0	13	100	0	52	38	15	15	30	1.88
1562258--1562288	15	2.1	15	93	0	53	48	16	22	12	1.80
1564302--1564380	20	3.7	21	75	15	72	26	13	15	44	1.84
1564367--1564405	13	3.0	13	96	0	69	30	17	15	35	1.91
1566852--1566924	20	3.6	20	81	3	101	35	13	19	31	1.91
1566870--1566945	21	3.7	21	80	3	100	42	11	17	28	1.84
1566852--1566945	41	2.3	41	98	0	179	39	12	18	29	1.88
1566984--1567009	13	2.0	13	100	0	52	38	15	15	30	1.88
1569368--1569578	113	1.9	112	87	3	307	41	18	12	27	1.86
1570370--1570460	16	5.8	16	78	7	87	45	30	10	13	1.78
1570378--1570463	31	2.7	32	83	7	104	45	30	11	12	1.78
1572954--1572993	19	2.0	20	95	4	73	30	17	5	47	1.69
1575026--1575073	19	2.5	20	80	13	55	43	0	0	56	0.99
1575377--1575413	16	2.3	16	90	0	56	40	24	16	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1575384--1575422	16	2.4	16	82	0	51	48	20	10	20	1.78
1575415--1575503	16	5.5	16	73	9	74	52	24	7	14	1.68
1576873--1576931	32	1.9	30	83	13	75	59	10	10	20	1.58
1577285--1577358	20	3.7	20	83	5	78	29	17	14	37	1.90
1579310--1579352	20	2.1	20	82	4	50	9	27	44	18	1.80
1581868--1581898	15	2.1	15	93	0	53	12	22	16	48	1.80
1585625--1585683	32	1.9	30	83	13	75	59	10	10	20	1.58
1586004--1586077	20	3.7	20	82	8	78	29	17	13	39	1.88
1587382--1587446	32	2.0	32	84	3	85	27	12	16	43	1.84
1587516--1587568	20	2.6	21	87	3	72	33	15	15	35	1.88
1588004--1588130	32	4.0	31	79	11	116	30	12	25	30	1.93
1589706--1589799	21	4.5	21	71	9	66	58	2	22	17	1.49
1589706--1589788	42	2.0	42	83	4	105	57	1	22	18	1.47
1591861--1591891	13	2.4	13	94	0	53	38	9	16	35	1.81
1591846--1591908	33	1.9	32	84	9	83	36	15	14	33	1.88
1596169--1596194	13	2.0	13	100	0	52	30	15	15	38	1.88
1598739--1598774	13	2.8	13	100	0	72	36	13	16	33	1.89
1600858--1600887	15	2.0	15	93	0	51	13	23	13	50	1.77
1604895--1604919	13	1.9	13	100	0	50	32	16	16	36	1.90
1608090--1608204	51	2.3	51	80	6	135	33	11	23	31	1.90
1607935--1608172	122	2.0	122	87	1	343	32	13	25	28	1.93
1608153--1608449	107	2.8	107	87	1	405	34	17	23	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608297--1608368	28	2.6	28	86	6	103	29	22	27	20	1.99
1608436--1608579	51	2.8	50	81	4	180	35	11	22	30	1.90
1610867--1610908	13	3.2	13	100	0	84	38	14	16	30	1.89
1610826--1610945	20	5.7	20	76	14	109	40	14	15	29	1.87
1610965--1610989	13	1.9	13	100	0	50	40	16	12	32	1.84
1610972--1611028	20	2.8	20	83	0	78	49	12	10	28	1.73
1611627--1611757	41	3.3	41	72	12	148	39	12	29	18	1.87
1611651--1611770	35	3.3	35	74	17	134	32	15	28	23	1.95
1611623--1611797	76	2.3	76	93	2	296	40	12	29	18	1.87
1611788--1611882	42	2.2	42	85	5	129	46	12	23	17	1.82

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