genome.fa.s21.2.7.7.80.10.50.1000.10.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: Scaffold21
Parameters: 2 7 7 80 10 50 1000
Length:  2821038

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  10  of  15  ( 1753 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)
1420851--1420880	12	2.5	12	94	0	51	40	36	6	16	1.75
1422493--1422584	30	3.1	30	81	10	118	50	2	0	47	1.13
1422638--1422689	17	2.9	17	83	8	59	55	0	0	44	0.99
1423674--1423707	16	2.2	16	90	10	54	70	0	2	26	1.01
1424283--1424322	14	2.9	14	88	7	55	45	2	2	50	1.28
1424324--1424378	22	2.4	24	79	14	71	49	0	0	50	1.00
1424313--1424387	41	1.9	41	84	13	104	46	0	0	53	1.00
1424313--1424399	20	4.4	18	74	18	59	49	0	0	50	1.00
1425266--1425305	19	2.1	19	90	9	64	40	0	2	57	1.12
1425791--1425824	2	17.5	2	93	6	61	50	0	0	50	1.00
1427496--1427564	27	2.4	30	76	11	74	53	1	0	44	1.09
1427946--1427972	2	13.5	2	100	0	54	51	0	0	48	1.00
1428298--1428338	20	2.2	18	91	8	64	56	0	0	43	0.99
1428637--1428687	21	2.3	22	84	15	70	31	0	5	62	1.19
1428636--1428676	16	2.6	16	81	14	57	34	0	2	63	1.08
1429670--1429702	2	16.5	2	100	0	66	51	0	0	48	1.00
1431360--1431404	22	2.0	23	86	4	65	48	2	2	46	1.26
1431664--1431695	2	16.0	2	100	0	64	50	0	0	50	1.00
1434912--1434962	12	3.9	12	78	16	57	43	5	11	39	1.66
1434918--1434974	27	2.1	27	90	0	87	40	5	19	35	1.74
1435025--1435057	9	3.7	9	95	0	57	45	18	33	3	1.65
1439692--1439742	12	3.9	12	78	16	57	43	5	11	39	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439698--1439754	27	2.1	27	90	0	87	40	5	19	35	1.74
1439805--1439846	9	4.7	9	96	0	75	45	19	33	2	1.63
1442686--1442752	8	8.0	8	76	18	57	34	0	0	65	0.93
1442691--1442761	14	5.1	14	73	23	69	33	0	0	66	0.92
1448202--1448230	14	2.0	15	93	6	51	31	0	0	68	0.89
1454417--1454457	2	19.5	2	90	9	64	48	2	2	46	1.28
1455928--1455965	18	2.1	19	85	5	51	63	5	2	28	1.30
1456529--1456736	68	3.0	68	92	2	335	24	6	30	38	1.81
1463188--1463223	4	8.8	4	96	3	63	75	0	22	2	0.94
1480826--1480875	21	2.3	22	83	10	59	54	0	0	46	1.00
1481286--1481356	32	2.4	31	81	9	85	46	2	0	50	1.16
1481423--1481469	14	3.5	13	80	13	51	53	0	0	46	1.00
1481418--1481476	26	2.3	25	75	13	66	59	0	0	40	0.97
1481962--1481993	14	2.3	14	94	0	55	43	3	6	46	1.44
1484640--1484669	15	1.9	15	93	6	51	6	3	90	0	0.56
1484642--1484671	14	2.1	15	93	6	53	6	3	90	0	0.56
1488114--1488190	37	2.1	36	83	7	93	45	1	0	53	1.08
1488825--1488866	2	21.0	2	95	0	75	50	2	0	47	1.14
1499182--1499221	17	2.3	18	91	4	64	25	0	0	75	0.81
1504989--1505013	12	2.1	12	100	0	50	0	8	0	92	0.40
1506219--1506252	16	2.1	16	100	0	68	23	32	0	44	1.54
1506255--1506434	93	1.9	95	92	4	303	36	6	25	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1506728--1506757	6	5.2	6	92	8	53	50	0	0	50	1.00
1509419--1509449	16	2.0	16	93	6	55	48	6	0	45	1.28
1509664--1509697	2	17.0	2	100	0	68	50	0	0	50	1.00
1510010--1510040	2	15.5	2	100	0	62	51	0	0	48	1.00
1521121--1521159	20	2.0	20	85	10	53	69	0	0	30	0.89
1522868--1522921	17	3.4	17	73	19	53	53	0	0	46	1.00
1522903--1522979	24	3.0	26	81	11	79	51	0	0	48	1.00
1522909--1522976	27	2.4	29	76	16	70	52	0	0	47	1.00
1522961--1522988	2	14.0	2	100	0	56	50	0	0	50	1.00
1523282--1523315	2	17.0	2	100	0	68	50	0	0	50	1.00
1529289--1529324	2	18.0	2	100	0	72	0	50	0	50	1.00
1534540--1534592	18	2.9	18	75	5	54	47	0	0	52	1.00
1536288--1536328	2	21.5	2	90	9	68	51	0	0	48	1.00
1537561--1537628	23	3.0	23	77	12	61	58	1	0	39	1.07
1539370--1539649	139	2.0	139	92	0	461	37	6	18	36	1.78
1555428--1555455	2	14.0	2	100	0	56	50	0	0	50	1.00
1557975--1558037	23	2.8	23	83	7	76	52	11	0	36	1.37
1557996--1558046	23	2.2	22	83	10	66	54	9	0	35	1.33
1558032--1558106	24	3.1	24	81	12	84	69	5	2	22	1.22
1558068--1558124	24	2.4	24	76	5	62	70	3	5	21	1.22
1558167--1558230	31	2.1	31	85	11	87	48	0	1	50	1.10
1558166--1558249	31	3.0	28	76	18	77	47	0	1	51	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558301--1558327	2	13.5	2	100	0	54	48	0	0	51	1.00
1558648--1558758	32	3.4	33	77	18	101	61	0	0	37	1.02
1558641--1558758	23	5.0	22	72	20	80	61	0	0	37	1.02
1558706--1558760	8	7.0	8	82	17	55	63	0	0	36	0.95
1563489--1563527	2	19.5	2	100	0	78	51	0	48	0	1.00
1564317--1564390	37	1.9	37	83	5	94	50	0	1	48	1.09
1567821--1567889	32	2.2	32	86	0	93	52	1	8	37	1.42
1568019--1568053	5	6.6	5	87	12	52	0	25	0	74	0.82
1568019--1568053	17	2.2	17	90	10	56	0	25	0	74	0.82
1569073--1569118	14	3.5	13	82	11	58	58	0	0	41	0.98
1569922--1569987	28	2.3	29	85	15	93	66	0	0	33	0.92
1570454--1570503	22	2.1	22	82	10	55	62	12	0	26	1.30
1570996--1571041	7	6.6	7	94	0	83	39	0	0	60	0.97
1570987--1571041	21	2.6	21	91	0	74	38	0	1	60	1.08
1573768--1573792	2	12.5	2	100	0	50	52	0	0	48	1.00
1575138--1575167	5	5.8	5	92	7	51	23	0	0	76	0.78
1575208--1575270	32	1.9	33	83	3	83	49	0	0	50	1.00
1576938--1576983	23	1.9	23	86	8	65	32	2	0	65	1.05
1583118--1583155	12	3.4	11	82	17	51	60	0	0	39	0.97
1583120--1583165	21	2.1	21	88	8	65	56	0	0	43	0.99
1583111--1583165	22	2.5	23	82	8	71	52	0	1	45	1.11
1583112--1583177	21	3.1	21	72	14	55	53	0	1	45	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1583885--1583930	16	2.8	16	90	3	65	50	0	0	50	1.00
1583913--1583963	23	2.2	24	92	3	86	43	1	3	50	1.31
1583915--1583973	23	2.6	22	87	10	84	47	1	3	47	1.29
1583874--1583976	39	2.6	39	75	6	136	47	1	2	47	1.28
1584984--1585012	2	14.5	2	100	0	58	51	0	0	48	1.00
1585745--1585782	2	19.0	2	100	0	76	50	0	0	50	1.00
1586100--1586147	25	1.9	25	82	0	60	64	0	0	35	0.94
1586117--1586183	20	3.7	19	67	32	58	53	0	1	44	1.09
1587086--1587112	2	13.5	2	100	0	54	51	48	0	0	1.00
1587232--1587465	118	2.0	118	90	3	373	44	9	9	36	1.71
1591481--1591544	29	2.3	27	80	17	78	45	0	0	54	0.99
1591959--1592010	18	2.9	17	75	13	52	46	0	0	53	1.00
1592164--1592221	29	2.0	29	96	0	107	39	10	25	24	1.87
1592167--1592236	29	2.4	29	81	13	83	44	8	22	24	1.81
1596796--1596851	29	1.9	29	96	0	103	41	10	25	23	1.86
1596797--1596866	29	2.4	29	81	13	83	44	8	22	24	1.81
1598054--1598088	18	1.9	18	94	0	61	45	0	11	42	1.40
1600981--1601033	20	2.6	20	76	11	54	54	0	0	45	0.99
1601304--1601393	38	2.4	37	80	9	101	32	2	0	65	1.05
1601319--1601365	23	2.1	21	85	14	60	25	2	0	72	0.96
1601333--1601404	21	3.5	21	73	21	71	27	2	0	69	1.02
1601333--1601414	39	2.2	38	84	8	105	29	2	0	68	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602168--1602206	20	2.0	20	89	0	60	35	5	46	12	1.65
1606742--1606787	20	2.3	20	88	0	65	39	4	45	10	1.59
1606863--1606933	27	2.6	27	82	6	81	46	21	7	25	1.76
1609424--1609466	17	2.5	17	85	11	61	62	0	0	37	0.95
1609435--1609566	11	12.5	11	68	18	66	60	0	0	38	1.02
1611965--1611991	14	1.9	14	100	0	54	22	3	22	51	1.63
1614097--1614196	32	3.3	30	77	18	91	38	6	0	56	1.24
1614097--1614196	30	3.3	31	76	15	93	38	6	0	56	1.24
1614244--1614281	18	2.1	18	85	9	51	18	0	5	76	0.97
1614245--1614274	15	1.9	16	93	6	53	20	0	6	73	1.05

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15