genome.fa.s79.2.7.7.80.10.50.1000.11.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   

This is table  11  of  26  ( 3105 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)
1480187--1480217	2	15.5	2	100	0	62	51	0	0	48	1.00
1480217--1480261	2	22.5	2	100	0	90	51	0	48	0	1.00
1483480--1484124	343	1.9	336	94	3	1152	43	17	14	24	1.87
1484006--1484295	145	2.0	140	96	3	535	45	20	12	21	1.84
1484533--1484629	48	2.0	47	88	5	142	43	14	13	28	1.83
1486665--1487096	213	2.0	213	100	0	864	42	17	13	26	1.86
1487396--1487429	2	17.0	2	100	0	68	50	0	50	0	1.00
1488143--1488428	145	2.0	144	84	4	382	44	20	8	26	1.79
1491087--1491177	42	2.2	42	87	0	128	27	17	9	45	1.80
1493582--1493620	20	1.9	21	84	5	53	38	15	0	46	1.46
1494808--1494849	9	4.6	9	77	16	50	42	2	0	54	1.13
1494794--1494854	28	2.2	29	79	8	72	49	1	0	49	1.10
1494801--1494879	28	3.0	26	73	18	65	41	1	0	56	1.07
1494810--1494856	14	3.7	12	81	18	51	40	2	0	57	1.11
1496262--1496367	48	2.2	48	85	6	135	46	0	0	52	1.06
1498351--1498393	22	2.0	22	86	4	61	41	0	0	58	0.98
1498348--1498465	20	5.8	21	67	24	65	44	1	0	53	1.16
1502042--1502084	7	5.7	7	81	13	50	58	0	0	41	0.98
1502064--1502112	9	5.7	9	83	11	59	55	0	0	44	0.99
1511692--1511729	18	2.1	18	85	9	51	57	0	2	39	1.12
1512737--1512783	13	3.5	13	85	8	51	68	4	0	27	1.08
1514191--1514298	44	2.6	40	76	15	105	40	0	1	57	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514238--1514286	12	4.1	12	76	10	55	40	0	0	59	0.98
1514240--1514287	24	2.0	24	84	8	62	39	0	0	60	0.97
1517874--1517922	2	24.5	2	100	0	98	48	0	0	51	1.00
1523624--1523686	31	2.0	33	87	6	94	49	6	9	34	1.61
1524178--1524221	22	2.0	22	90	0	70	45	11	6	36	1.67
1525184--1525231	20	2.5	19	80	6	62	52	2	0	45	1.12
1526175--1526208	2	17.0	2	93	0	59	47	0	0	52	1.00
1526409--1526470	15	4.1	15	79	6	63	50	0	0	50	1.00
1526410--1526462	21	2.6	21	82	14	74	49	0	0	50	1.00
1526405--1526483	37	2.1	38	81	6	99	50	0	1	48	1.08
1527294--1527318	6	4.2	6	100	0	50	0	16	16	68	1.22
1527440--1527477	3	12.7	3	100	0	76	0	34	0	65	0.93
1528452--1528494	17	2.6	17	82	10	54	4	11	0	83	0.78
1535607--1535666	30	1.9	32	83	6	79	43	8	1	46	1.43
1535694--1535734	22	1.9	22	85	5	57	56	0	0	43	0.99
1537995--1538043	21	2.3	21	80	13	55	48	0	2	48	1.12
1537997--1538042	22	2.1	22	84	8	58	45	0	2	52	1.13
1538540--1538596	24	2.4	24	82	8	64	31	0	5	63	1.17
1540483--1540547	16	4.1	16	70	16	55	46	4	0	49	1.22
1541585--1541637	16	3.2	16	84	12	72	28	13	13	45	1.80
1545041--1545066	2	13.0	2	100	0	52	50	0	0	50	1.00
1549812--1549865	21	2.7	20	77	8	56	55	1	0	42	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556727--1556764	3	12.7	3	100	0	76	34	0	0	65	0.93
1560764--1560813	22	2.3	21	80	10	55	40	0	4	56	1.18
1560802--1560826	13	1.9	13	100	0	50	40	0	0	60	0.97
1560798--1560883	31	2.9	30	72	14	81	50	0	0	50	1.00
1561032--1561090	31	2.0	29	83	6	73	44	0	1	54	1.10
1561048--1561101	21	2.4	22	82	14	58	46	0	0	53	1.00
1561137--1561208	29	2.6	25	78	21	81	56	1	0	41	1.07
1562094--1562182	34	2.7	34	79	8	87	47	1	0	51	1.08
1562326--1562372	2	24.0	2	78	4	51	46	6	0	46	1.28
1564535--1564671	67	2.0	67	87	5	195	41	14	11	32	1.82
1565326--1565373	11	4.4	11	82	7	53	58	0	0	41	0.98
1565421--1565458	15	2.5	15	91	4	58	47	2	0	50	1.15
1565834--1565868	16	2.2	16	100	0	70	48	11	0	40	1.39
1566560--1566609	20	2.4	21	83	10	66	70	2	0	28	0.99
1566651--1566731	30	2.8	29	81	9	94	34	14	2	48	1.58
1566775--1566843	30	2.4	28	79	13	77	56	7	4	31	1.46
1567061--1567280	34	6.5	34	81	3	185	26	5	24	43	1.77
1567061--1567280	68	3.3	67	81	2	251	26	5	24	43	1.77
1567061--1567280	102	2.2	101	83	3	271	26	5	24	43	1.77
1567584--1567640	19	3.0	19	81	0	69	26	19	17	36	1.94
1571713--1571931	34	6.5	35	85	3	254	26	7	24	41	1.81
1571713--1571937	102	2.2	101	85	7	312	26	7	24	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573018--1573069	23	2.3	23	89	0	77	48	7	0	44	1.31
1577521--1577552	15	2.1	15	94	0	55	12	0	9	78	0.97
1578502--1578679	92	1.9	92	98	0	347	31	19	16	32	1.94
1584588--1584618	6	5.0	6	92	7	53	48	0	0	51	1.00
1585796--1585834	10	3.9	10	89	0	51	48	0	2	48	1.15
1585796--1585839	15	3.0	15	86	3	54	45	0	2	52	1.13
1586173--1586227	17	3.4	16	73	14	51	49	3	0	47	1.19
1587894--1587938	2	22.5	2	95	0	81	46	2	0	51	1.13
1599949--1600011	27	2.3	27	73	15	67	49	0	0	50	1.00
1600332--1600366	3	11.7	3	100	0	70	31	0	0	68	0.90
1600777--1600816	21	1.9	21	94	0	71	32	0	0	67	0.91
1600771--1600877	27	4.0	27	72	18	89	40	0	0	59	0.97
1600773--1600825	21	2.6	19	77	13	61	35	0	0	64	0.94
1600775--1600903	27	4.7	26	71	23	86	40	0	0	59	0.97
1600828--1600920	32	2.8	33	80	11	111	40	0	0	59	0.98
1601204--1601256	27	2.0	26	89	10	81	35	0	0	64	0.94
1605517--1605574	30	1.9	30	92	0	98	25	5	24	44	1.74
1606490--1606570	35	2.4	32	82	12	83	41	2	0	55	1.13
1606518--1606592	32	2.4	32	83	12	95	44	1	0	54	1.08
1611294--1611335	22	2.0	22	90	4	68	47	0	0	52	1.00
1611315--1611351	19	1.9	18	89	10	56	54	0	0	45	1.00
1611616--1611678	20	3.0	20	73	19	58	53	0	1	44	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611639--1611686	20	2.6	18	83	12	53	58	0	2	39	1.10
1611786--1611813	2	14.0	2	100	0	56	50	0	50	0	1.00
1612395--1612450	24	2.4	23	78	18	62	46	5	0	48	1.25
1612349--1612427	7	11.4	7	71	22	51	55	1	0	43	1.07
1612453--1612494	20	2.0	21	90	4	68	40	0	0	59	0.97
1612474--1612538	29	2.3	28	76	5	69	41	0	0	58	0.98
1612883--1612942	19	3.1	19	71	4	57	56	0	3	40	1.16
1612928--1613036	42	2.5	46	72	12	104	53	0	1	44	1.11
1613431--1613473	21	2.0	23	90	9	72	48	0	0	51	1.00
1613433--1613482	22	2.3	21	80	10	57	50	0	0	50	1.00
1617843--1617892	20	2.8	19	71	22	54	54	0	0	46	1.00
1617934--1617989	25	2.2	27	81	9	64	60	3	0	35	1.14
1618643--1618832	84	2.3	85	86	6	262	45	2	3	47	1.34
1619816--1619849	16	2.2	16	89	5	52	11	5	0	82	0.83
1619992--1620023	16	2.0	16	93	0	55	50	9	0	40	1.35
1620008--1620049	22	2.0	22	86	13	61	59	11	0	28	1.33
1620156--1620250	28	3.2	31	75	13	92	53	2	2	42	1.24
1620153--1620250	29	3.4	28	75	9	99	54	2	2	41	1.23
1620828--1620867	16	2.5	17	84	12	57	57	0	0	42	0.98
1621010--1621044	17	2.1	17	89	10	54	48	0	8	42	1.33
1621384--1621428	19	2.4	19	88	3	65	46	11	0	42	1.39
1623482--1623550	35	2.0	35	86	8	97	65	1	0	33	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1625106--1625135	14	2.1	15	93	6	53	0	13	0	86	0.57
1632268--1632355	13	6.5	13	70	17	63	56	1	2	39	1.19
1632268--1632331	15	4.1	16	76	11	62	54	0	1	43	1.09
1632278--1632383	30	3.6	29	75	13	101	55	0	1	41	1.17
1633255--1633415	42	3.7	42	70	19	132	37	1	2	58	1.22
1633233--1633367	23	6.0	23	65	25	56	37	2	2	57	1.23
1633219--1633402	90	2.1	90	98	1	343	38	2	3	56	1.28
1633420--1633453	14	2.2	16	90	10	54	29	0	0	70	0.87
1633340--1633487	59	2.5	61	78	10	146	37	0	1	60	1.10
1633454--1633512	25	2.5	25	83	8	70	42	0	1	55	1.09

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