genome.fa.s344.2.7.7.80.10.50.1000.10.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: Scaffold344
Parameters: 2 7 7 80 10 50 1000
Length:  1758742

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

This is table  10  of  11  ( 1257 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)
1564905--1565367	55	8.4	55	88	6	706	28	30	20	21	1.98
1564906--1565367	110	4.2	110	98	0	883	28	29	20	21	1.98
1565370--1566057	55	12.4	55	84	8	839	29	29	19	22	1.98
1565838--1565985	29	5.3	29	61	18	89	28	31	18	22	1.97
1566650--1566689	13	3.0	13	89	7	62	82	0	7	10	0.84
1566652--1566690	14	2.8	14	96	0	69	87	0	5	7	0.68
1566697--1566772	21	3.7	21	87	7	102	35	17	14	32	1.90
1566808--1566875	19	3.9	19	78	21	85	35	11	14	38	1.83
1566810--1566872	32	2.0	32	96	0	117	34	12	15	36	1.86
1566829--1566853	13	1.9	13	100	0	50	36	16	16	32	1.90
1566915--1566940	13	2.0	13	100	0	52	30	15	15	38	1.88
1566895--1566961	33	2.0	33	88	0	98	25	14	16	43	1.86
1569408--1569483	27	2.8	28	89	2	109	23	34	21	21	1.97
1569299--1569635	52	6.4	51	71	14	229	29	26	12	31	1.93
1569619--1569695	28	2.8	28	88	7	104	24	33	18	23	1.96
1569297--1569702	212	1.9	212	90	3	647	28	27	13	30	1.94
1571637--1571721	42	2.0	42	100	0	170	28	14	34	23	1.93
1574388--1574425	4	9.5	4	91	0	58	71	0	2	26	1.00
1576140--1576170	13	2.4	13	94	0	53	35	12	16	35	1.87
1576120--1576186	33	2.0	33	88	11	102	32	17	13	35	1.89
1576215--1576354	20	6.7	21	70	18	98	32	17	15	33	1.92
1576153--1576433	84	3.4	84	92	2	464	32	17	16	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1576215--1576354	41	3.4	41	68	18	135	32	17	15	33	1.92
1577868--1578239	158	2.4	158	83	3	428	36	11	23	28	1.89
1577868--1578201	79	4.2	80	77	8	315	35	11	24	27	1.91
1577868--1578242	79	4.7	80	73	9	277	36	11	23	28	1.90
1578740--1578873	50	2.7	50	88	4	182	40	12	20	26	1.88
1580300--1580329	13	2.3	13	94	0	51	0	26	0	73	0.84
1583002--1583053	27	2.0	27	88	3	79	17	17	42	23	1.89
1585184--1585312	52	2.5	52	100	0	258	29	17	18	34	1.94
1585184--1585332	52	2.9	51	94	4	246	30	17	18	32	1.94
1585321--1585345	13	1.9	13	100	0	50	36	16	16	32	1.90
1585386--1585452	33	2.0	33	88	0	98	40	13	11	34	1.81
1585408--1585432	13	1.9	13	100	0	50	32	16	16	36	1.90
1586388--1587206	49	16.7	49	86	5	1113	31	17	26	24	1.97
1587208--1587300	33	2.8	33	93	6	163	15	19	36	29	1.92
1587308--1587989	34	19.7	34	72	17	376	33	13	32	20	1.91
1587308--1587905	34	16.9	35	73	18	410	33	12	33	20	1.90
1587382--1587551	87	1.9	88	92	1	288	32	14	33	19	1.91
1587470--1587934	70	6.8	69	81	11	441	33	12	32	21	1.91
1587812--1587904	28	3.1	28	71	16	96	34	12	30	22	1.92
1587642--1587904	62	4.0	62	86	8	296	33	12	32	20	1.90
1587744--1587993	96	2.6	93	79	9	265	33	14	29	22	1.93
1587893--1588087	62	3.1	63	94	3	317	29	16	28	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587912--1588087	93	1.9	93	87	6	259	27	18	28	25	1.98
1587911--1588087	31	5.7	30	85	5	230	28	18	28	25	1.98
1589388--1589470	1	83.0	1	70	0	58	0	0	14	85	0.60
1589390--1589465	23	3.3	23	80	12	93	0	0	15	84	0.63
1589403--1589469	19	3.5	19	84	15	93	0	0	14	85	0.61
1589402--1589470	20	3.5	20	84	7	97	0	0	14	85	0.60
1594176--1594227	27	2.0	27	88	3	79	17	17	42	23	1.89
1596359--1596487	52	2.5	52	100	0	258	29	17	18	34	1.94
1596359--1596507	52	2.9	51	94	4	246	30	17	18	32	1.94
1596496--1596520	13	1.9	13	100	0	50	36	16	16	32	1.90
1596561--1596627	33	2.0	33	88	0	98	40	13	11	34	1.81
1596583--1596607	13	1.9	13	100	0	50	32	16	16	36	1.90
1602113--1602157	20	2.2	21	84	7	58	57	22	0	20	1.40
1602538--1602586	22	2.2	23	85	10	66	20	4	2	73	1.10
1602698--1602736	14	2.9	14	88	3	62	64	0	2	33	1.08
1604213--1604268	20	2.8	20	100	0	112	25	16	10	48	1.78
1604162--1604317	70	2.2	70	91	0	249	26	16	12	43	1.84
1605654--1605726	20	3.6	20	81	3	101	35	13	19	31	1.91
1605672--1605747	21	3.7	21	80	3	100	42	11	17	28	1.84
1605654--1605747	41	2.3	41	98	0	179	39	12	18	29	1.88
1605786--1605811	13	2.0	13	100	0	52	38	15	15	30	1.88
1609872--1609902	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611914--1611992	20	3.7	21	75	15	72	26	13	15	44	1.84
1611979--1612017	13	3.0	13	96	0	69	30	17	15	35	1.91
1614470--1614542	20	3.6	20	81	3	101	35	13	19	31	1.91
1614488--1614563	21	3.7	21	80	3	100	42	11	17	28	1.84
1614470--1614563	41	2.3	41	98	0	179	39	12	18	29	1.88
1614602--1614627	13	2.0	13	100	0	52	38	15	15	30	1.88
1617128--1617260	66	2.0	67	97	1	250	35	30	9	24	1.88
1622534--1623665	62	18.4	62	80	5	1157	24	23	19	33	1.97
1622534--1623665	184	6.1	181	81	5	1144	24	23	19	33	1.97
1623726--1624210	42	11.3	42	77	6	400	22	22	10	45	1.82
1623674--1624070	129	3.1	131	86	2	525	21	22	11	44	1.84
1623686--1624229	129	4.2	129	79	6	498	22	22	11	44	1.84
1623686--1624229	87	6.3	84	77	9	395	22	22	11	44	1.84
1624119--1624341	117	1.9	117	79	5	254	21	23	11	43	1.85
1624233--1624335	42	2.5	41	83	9	120	15	26	11	46	1.80
1624929--1625093	50	3.3	50	86	0	231	28	16	13	41	1.86
1627429--1627632	79	2.6	79	84	1	266	28	25	12	33	1.93
1627619--1627921	79	3.8	78	79	4	324	30	25	11	32	1.91
1627489--1627764	130	2.1	130	82	4	335	28	24	12	33	1.92
1627428--1627817	208	1.9	209	83	3	509	28	24	12	34	1.91
1627717--1627949	80	2.9	78	78	6	263	31	26	10	31	1.90
1628200--1628266	37	1.9	35	88	11	102	29	25	11	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1628724--1628749	13	2.0	13	100	0	52	30	15	15	38	1.88
1628788--1628863	21	3.7	21	82	3	109	28	18	11	40	1.86
1628808--1628881	20	3.7	20	81	3	103	31	20	13	35	1.91
1628788--1628881	41	2.3	41	100	0	188	29	19	12	38	1.89
1630667--1630691	13	1.9	13	100	0	50	32	16	16	36	1.90
1633813--1633879	37	1.9	35	88	11	102	29	25	11	32	1.92
1634337--1634362	13	2.0	13	100	0	52	30	15	15	38	1.88
1634401--1634476	21	3.7	21	82	3	109	28	18	11	40	1.86
1634421--1634494	20	3.7	20	81	3	103	31	20	13	35	1.91
1634401--1634494	41	2.3	41	100	0	188	29	19	12	38	1.89
1637212--1637236	13	1.9	13	100	0	50	32	20	16	32	1.94
1637327--1637463	53	2.6	53	91	1	229	27	18	17	37	1.93
1637433--1637503	20	3.5	21	80	14	78	30	15	15	38	1.89
1637543--1637583	21	2.0	21	85	9	57	39	9	12	39	1.76
1638601--1638802	57	3.5	56	80	8	165	28	11	15	44	1.82
1638689--1638775	29	3.0	29	69	14	81	31	11	12	44	1.78
1638664--1638802	57	2.4	57	85	3	181	29	10	14	45	1.79
1645753--1645777	13	1.9	13	100	0	50	32	16	16	36	1.90
1645824--1645865	13	3.2	13	93	0	75	28	14	19	38	1.90
1647953--1648011	21	2.8	21	86	0	73	61	0	22	16	1.35
1651217--1651241	13	1.9	13	100	0	50	32	16	16	36	1.90
1651289--1651330	13	3.2	13	89	0	66	28	16	19	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1651786--1651872	32	2.5	33	82	12	97	27	13	25	33	1.94
1657208--1657261	20	2.6	21	88	5	74	44	11	14	29	1.80
1667057--1667087	2	15.5	2	100	0	62	51	0	48	0	1.00
1667970--1668012	21	2.0	21	100	0	86	39	0	13	46	1.44
1672186--1672357	85	2.0	85	95	0	308	27	9	16	45	1.79
1675135--1675252	20	5.6	21	76	15	100	29	17	13	38	1.88
1675170--1675211	13	3.2	13	96	0	75	33	16	11	38	1.86
1677553--1677714	50	3.2	51	77	3	166	27	23	14	33	1.94
1677705--1677775	28	2.6	27	82	6	81	22	29	21	26	1.99
1677738--1677913	82	2.2	79	88	3	255	25	24	15	34	1.95

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