genome.fa.s475.2.7.7.80.10.50.1000.10.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: Scaffold475
Parameters: 2 7 7 80 10 50 1000
Length:  1773841

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

This is table  10  of  12  ( 1353 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)
1468054--1468698	164	3.9	163	76	5	509	20	22	12	44	1.85
1468059--1468677	41	15.1	41	71	8	179	20	23	12	43	1.85
1469552--1469601	21	2.4	21	93	0	82	36	14	16	34	1.88
1472307--1472346	20	2.0	20	95	0	71	27	15	7	50	1.70
1472367--1472422	20	2.7	21	78	10	62	30	17	12	39	1.87
1472387--1472440	20	2.6	21	82	2	65	33	18	9	38	1.83
1472367--1472440	21	3.6	20	77	3	67	31	17	12	39	1.86
1476473--1476584	56	2.0	56	82	3	136	39	11	19	29	1.87
1476550--1477043	56	8.9	56	69	10	232	42	13	18	24	1.87
1476867--1476973	55	1.9	56	85	9	148	44	13	17	24	1.84
1476959--1477120	55	2.9	53	79	8	157	37	17	20	24	1.94
1477318--1477400	29	2.9	28	78	7	85	26	12	8	53	1.66
1480914--1480997	13	5.5	13	69	28	51	36	17	11	33	1.87
1480922--1480984	19	3.7	18	76	24	73	36	17	12	33	1.88
1480914--1480999	32	2.7	32	94	0	154	38	17	11	32	1.86
1481517--1481633	59	2.0	59	94	0	207	29	27	11	30	1.92
1488811--1488849	20	2.0	20	84	0	51	35	7	15	41	1.76
1498929--1499011	30	2.7	31	86	3	114	34	33	9	21	1.86
1498894--1499123	64	3.6	64	74	13	195	31	27	15	25	1.96
1498890--1499123	32	7.4	32	72	10	176	31	26	16	25	1.96
1500081--1500576	166	3.0	164	78	8	452	29	11	10	49	1.71
1500195--1500632	165	2.6	162	77	8	425	31	11	8	49	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1501368--1501422	11	5.3	11	78	10	62	78	0	20	1	0.85
1501376--1501410	10	3.4	10	88	7	52	80	0	20	0	0.72
1501368--1501422	21	2.7	21	86	8	69	78	0	20	1	0.85
1507386--1507442	20	2.9	20	81	5	71	35	15	12	36	1.85
1507428--1507454	13	2.1	13	100	0	54	40	14	14	29	1.86
1510146--1510378	128	1.8	130	89	2	355	33	21	11	34	1.88
1513611--1513652	15	2.8	15	88	0	66	30	14	2	52	1.54
1514080--1514110	3	10.3	3	92	0	53	29	32	3	35	1.73
1515850--1515888	20	1.9	21	94	5	71	20	17	20	41	1.91
1520188--1520265	29	2.7	29	85	0	111	19	12	10	57	1.63
1521503--1521546	20	2.1	21	91	4	72	43	9	15	31	1.79
1524103--1524273	50	3.3	51	77	7	175	29	25	8	36	1.85
1524171--1524617	133	3.4	131	78	6	483	27	25	10	36	1.88
1524338--1524834	211	2.3	213	80	7	553	28	26	9	35	1.88
1524472--1524689	80	2.7	78	79	3	222	29	25	9	35	1.88
1524567--1524822	133	1.9	134	82	5	322	28	25	10	35	1.89
1528009--1528171	58	2.8	58	78	12	149	25	12	14	47	1.79
1528099--1528234	58	2.4	58	82	1	148	25	12	15	47	1.80
1530857--1530907	20	2.5	21	90	3	77	39	11	17	31	1.86
1530948--1531086	52	2.7	52	82	1	163	27	15	12	43	1.84
1532243--1532292	19	2.6	19	87	3	64	30	14	14	42	1.84
1532323--1532397	20	3.8	20	91	3	107	40	13	18	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538530--1538569	13	3.1	13	81	0	53	27	15	20	37	1.92
1540402--1540426	13	1.9	13	100	0	50	36	16	16	32	1.90
1540382--1540448	33	2.0	33	88	0	98	32	11	14	40	1.83
1540489--1540513	13	1.9	13	100	0	50	32	16	16	36	1.90
1540522--1540702	52	3.5	52	96	0	326	34	18	18	28	1.95
1544622--1544709	20	4.5	19	81	5	86	30	17	14	37	1.90
1544742--1544807	33	2.0	33	85	5	89	34	12	19	33	1.89
1546551--1546772	79	2.8	79	76	6	214	27	22	13	35	1.92
1548093--1548402	58	5.3	59	72	8	240	28	11	14	44	1.81
1553767--1553808	14	3.0	14	89	0	57	16	0	33	50	1.46
1553767--1553798	16	2.0	16	93	0	55	9	0	40	50	1.35
1554648--1554697	3	17.3	3	89	8	77	28	0	0	72	0.86
1556419--1556480	30	2.1	29	82	14	74	45	0	0	54	0.99
1556416--1556494	30	2.9	26	77	17	72	43	1	0	55	1.07
1556811--1557003	100	1.9	99	84	5	255	43	11	7	37	1.70
1557038--1557069	2	16.0	2	93	0	55	50	0	3	46	1.17
1558492--1558549	5	11.8	5	77	14	50	67	3	0	29	1.07
1558494--1558553	27	2.2	28	90	3	95	66	3	0	30	1.07
1558491--1558565	21	3.7	21	76	18	68	65	4	0	30	1.11
1558504--1558549	17	2.7	18	83	12	62	69	4	0	26	1.07
1558492--1558549	11	5.4	11	76	17	59	67	3	0	29	1.07
1558944--1558991	20	2.3	20	86	10	62	39	2	0	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558939--1558991	19	2.7	19	85	11	63	41	1	0	56	1.10
1558937--1558993	22	2.7	21	78	18	64	43	1	0	54	1.10
1558999--1559053	14	3.8	15	80	7	69	65	0	0	34	0.93
1559008--1559056	14	3.5	14	86	8	73	67	0	0	32	0.91
1559008--1559056	21	2.3	21	82	6	64	67	0	0	32	0.91
1558999--1559056	29	2.0	29	90	3	91	63	0	0	36	0.94
1560320--1560370	11	4.4	11	79	16	50	66	0	0	33	0.92
1560402--1560427	12	2.2	12	100	0	52	69	0	0	30	0.89
1560525--1560569	5	8.2	5	88	11	54	37	0	0	62	0.96
1560905--1560946	22	2.0	22	86	13	61	59	0	0	40	0.97
1560914--1560968	30	1.9	27	85	10	74	61	0	0	38	0.96
1560897--1560968	28	2.6	29	81	12	80	58	0	1	40	1.07
1561016--1561061	6	7.7	6	97	0	74	50	10	0	39	1.38
1561559--1561621	33	1.9	33	87	6	92	49	0	0	50	1.00
1561918--1561943	3	8.7	3	100	0	52	34	0	0	65	0.93
1561991--1562024	6	5.7	6	100	0	68	0	67	0	32	0.91
1562864--1562931	16	4.3	16	80	14	61	32	0	2	64	1.08
1562958--1563003	20	2.2	21	80	7	58	45	2	2	50	1.26
1564295--1564319	6	4.2	6	100	0	50	68	0	0	32	0.90
1564836--1564895	9	6.3	9	71	17	50	70	1	1	26	1.07
1565168--1565225	27	2.2	27	81	9	66	39	0	1	58	1.08
1565194--1565263	16	4.3	16	79	1	77	38	4	2	54	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1565204--1565270	32	2.1	32	86	5	91	35	5	4	53	1.46
1565387--1565427	22	1.9	21	90	5	64	36	4	12	46	1.63
1566410--1566466	16	3.6	16	79	9	71	17	17	24	40	1.91
1566362--1566472	16	6.9	16	69	14	68	18	16	22	42	1.89
1566362--1566476	32	3.6	33	75	11	89	18	16	23	41	1.89
1574707--1574750	20	2.4	19	85	11	56	20	0	13	65	1.26
1574693--1574753	21	3.0	21	87	2	79	22	0	13	63	1.28
1576344--1576575	98	2.4	97	89	0	365	29	15	27	26	1.96
1577828--1577879	20	2.6	20	100	0	104	50	9	19	21	1.76
1591806--1592241	62	7.1	61	82	9	519	27	25	18	27	1.98
1592917--1592955	18	2.2	18	86	9	53	76	7	5	10	1.13
1594172--1594222	11	4.8	11	79	11	54	80	0	3	15	0.86
1594170--1594223	24	2.2	24	83	6	65	79	0	5	14	0.90
1595675--1595729	26	2.1	27	82	3	67	50	0	7	41	1.30
1597530--1597567	16	2.4	16	90	0	58	44	0	2	52	1.14
1597638--1597678	23	1.9	22	85	14	59	41	0	0	58	0.98
1600347--1600408	27	2.3	27	86	8	83	41	0	0	58	0.98
1600351--1600411	21	2.8	21	78	14	61	42	0	0	57	0.98
1600395--1600426	17	2.0	17	88	11	50	28	0	0	71	0.86
1600513--1600541	14	2.0	15	93	6	51	44	0	0	55	0.99
1601912--1601958	21	2.2	21	96	0	85	40	6	19	34	1.77
1602632--1602672	16	2.6	15	85	11	55	60	2	9	26	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1606685--1606734	21	2.4	22	83	9	61	32	20	0	48	1.50
1611769--1611844	20	3.8	20	79	6	91	39	13	13	34	1.83
1611766--1611844	40	2.0	39	87	2	113	39	13	12	34	1.83
1612405--1612997	169	3.5	167	87	4	796	23	19	30	27	1.98
1612408--1612996	197	3.0	197	86	6	809	23	19	30	27	1.98
1612405--1613000	28	21.1	28	86	2	710	22	19	30	27	1.98
1614121--1614211	13	6.1	13	71	26	65	32	15	15	36	1.89
1614100--1614229	19	7.8	18	70	29	67	33	14	15	36	1.88
1614101--1614229	64	2.0	65	87	4	190	34	14	15	35	1.88
1614102--1614231	32	4.0	32	86	8	165	34	14	15	35	1.88

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