genome.fa.s103.2.7.7.80.10.50.1000.13.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  13  of  21  ( 2458 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)
1409766--1409839	38	2.0	38	86	7	107	44	0	0	55	0.99
1409889--1409940	25	2.0	27	88	7	81	57	0	0	42	0.98
1414652--1414699	25	2.0	24	83	4	60	37	4	0	58	1.18
1415543--1415591	18	2.7	18	81	9	55	42	0	0	57	0.99
1416057--1416203	65	2.2	67	91	2	244	32	14	3	49	1.60
1416189--1416214	2	13.0	2	100	0	52	50	0	0	50	1.00
1416297--1416334	17	2.3	17	90	4	60	39	0	0	60	0.97
1416442--1416492	12	4.3	12	71	14	52	50	0	0	49	1.00
1416430--1416474	19	2.6	18	86	10	58	48	0	0	51	1.00
1416470--1416519	18	2.7	19	87	6	68	58	0	0	42	0.98
1416869--1416935	31	2.2	31	84	10	84	38	0	2	58	1.14
1416923--1416993	25	3.0	23	80	12	72	50	1	1	46	1.18
1416996--1417042	12	4.0	13	76	23	59	48	0	0	51	1.00
1416995--1417047	22	2.4	22	100	0	106	43	0	0	56	0.99
1419020--1419045	3	8.7	3	100	0	52	34	0	0	65	0.93
1419392--1419442	18	2.8	17	73	23	50	60	0	1	37	1.08
1426352--1426393	17	2.4	17	80	11	50	54	0	0	45	0.99
1426380--1426434	29	2.0	27	85	7	74	60	0	0	40	0.97
1426513--1426583	30	2.2	33	85	11	96	46	1	0	52	1.09
1429506--1429555	20	2.5	20	83	3	55	40	0	0	60	0.97
1430986--1431023	17	2.1	19	85	9	53	36	10	0	52	1.36
1431733--1431766	3	11.3	3	93	0	59	64	32	2	0	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1432473--1432519	18	2.6	19	77	12	55	53	2	0	44	1.12
1432473--1432520	19	2.7	18	81	15	55	52	2	0	45	1.12
1432795--1432834	14	2.9	14	85	7	55	55	0	0	45	0.99
1433119--1433156	14	2.7	14	87	0	58	63	0	0	36	0.95
1434207--1434275	5	13.0	5	72	15	50	42	0	1	56	1.08
1434200--1434266	16	4.2	16	78	14	66	44	0	1	53	1.09
1443142--1443217	30	2.6	29	83	10	91	52	0	7	39	1.31
1443326--1443400	36	2.2	33	81	11	80	41	1	0	57	1.07
1448096--1448190	11	8.6	11	70	18	56	64	2	3	30	1.21
1448086--1448155	33	2.2	30	85	7	86	70	1	2	25	1.10
1448090--1448205	17	6.6	17	70	18	62	63	2	2	31	1.21
1454066--1454113	18	2.5	20	77	12	57	62	0	0	37	0.95
1454047--1454122	23	3.3	23	76	8	64	56	0	0	43	0.99
1454207--1454257	19	2.6	19	93	3	84	56	1	9	31	1.43
1454319--1454378	20	2.8	20	76	18	57	55	0	0	45	0.99
1458919--1458943	2	12.5	2	100	0	50	52	0	0	48	1.00
1459090--1459148	25	2.4	25	81	10	68	57	3	8	30	1.45
1459216--1459262	2	24.5	2	89	8	71	48	2	0	48	1.13
1459570--1459609	21	1.9	21	85	10	55	32	0	7	60	1.25
1460444--1460476	14	2.4	14	90	10	50	63	0	0	36	0.95
1460680--1460721	3	14.0	3	100	0	84	33	0	0	66	0.92
1461219--1461246	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465546--1465579	2	17.0	2	100	0	68	0	50	0	50	1.00
1468245--1468303	26	2.2	27	82	8	68	49	0	0	50	1.00
1468300--1468574	113	2.5	109	85	9	346	42	1	2	53	1.23
1468380--1468603	113	2.0	112	82	8	278	45	0	2	50	1.19
1474097--1474133	19	2.0	19	89	5	58	35	0	0	64	0.94
1474175--1474220	17	2.8	17	86	3	58	54	2	2	41	1.25
1475067--1475091	13	1.9	13	100	0	50	48	0	0	52	1.00
1475411--1475450	21	2.0	20	85	5	53	27	0	5	67	1.11
1481774--1481853	42	2.0	40	82	9	99	52	0	1	46	1.08
1486732--1486782	25	2.0	25	92	0	84	39	3	7	49	1.51
1488638--1488684	19	2.3	21	86	13	64	44	0	2	53	1.12
1489112--1489163	17	2.8	19	72	27	58	53	0	0	46	1.00
1489270--1489338	30	2.3	30	80	2	77	40	0	0	59	0.97
1489294--1489348	22	2.5	22	80	13	69	40	0	0	60	0.97
1489890--1489962	37	2.0	37	97	0	137	9	19	17	53	1.71
1491240--1491270	16	1.9	16	93	0	53	54	0	3	41	1.16
1491856--1491903	13	3.5	13	81	10	60	33	0	0	66	0.92
1491856--1491904	14	3.6	14	83	8	57	32	0	0	67	0.91
1492229--1492254	4	6.5	4	100	0	52	76	0	0	23	0.78
1492271--1492306	12	3.0	12	83	0	54	0	47	5	47	1.25
1498337--1498667	177	1.9	176	80	3	389	43	8	9	38	1.67
1498877--1498966	2	44.5	2	79	10	94	46	6	2	44	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1499217--1499262	24	1.9	24	83	16	60	69	0	2	28	1.00
1500259--1500310	18	2.8	19	77	19	65	53	0	0	46	1.00
1500277--1500311	16	2.1	17	89	5	54	54	0	0	45	0.99
1500318--1500372	20	2.8	19	76	15	58	52	1	0	45	1.11
1500859--1500889	14	2.2	14	94	0	53	74	0	0	25	0.82
1503742--1503888	28	5.5	28	64	26	70	39	0	0	60	0.97
1503749--1503888	6	25.2	6	69	20	56	39	0	0	60	0.97
1503744--1503887	18	7.8	19	75	15	101	38	0	0	61	0.96
1503822--1503898	23	3.2	23	80	14	75	32	2	0	64	1.07
1503826--1503888	20	3.4	18	81	18	76	31	0	0	68	0.90
1505000--1505060	23	2.6	23	75	17	63	55	0	0	44	0.99
1505012--1505055	22	2.0	22	86	8	63	54	0	0	45	0.99
1507857--1507899	21	2.0	21	100	0	86	62	0	4	32	1.15
1507857--1507914	21	2.7	21	89	7	73	62	0	6	31	1.22
1508634--1508689	24	2.3	24	84	6	69	58	0	0	41	0.98
1508656--1508696	17	2.3	19	80	12	52	56	0	0	43	0.99
1508640--1508692	20	2.5	21	85	14	74	54	0	0	45	0.99
1512271--1512330	20	3.0	20	72	22	54	56	1	1	40	1.19
1513844--1513870	2	13.5	2	100	0	54	48	0	0	51	1.00
1515198--1515240	19	2.3	19	84	8	52	30	0	0	69	0.88
1515548--1515603	29	2.0	28	85	3	76	57	5	7	30	1.48
1515591--1515658	32	2.1	32	84	10	86	52	8	2	35	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516976--1517026	24	2.1	23	82	7	57	39	0	3	56	1.18
1516974--1517028	25	2.2	24	75	15	58	40	0	3	56	1.17
1517222--1517256	17	1.9	19	88	11	56	54	0	0	45	0.99
1518622--1518678	28	2.0	28	83	6	71	45	5	0	49	1.24
1520625--1520690	33	2.0	32	85	8	89	48	4	0	46	1.22
1521982--1522010	8	3.6	8	100	0	58	10	10	27	51	1.68
1522565--1522611	16	3.0	15	77	20	51	70	0	0	29	0.88
1522771--1522814	11	4.0	11	80	11	54	31	0	0	68	0.90
1522807--1522841	16	2.2	16	89	0	52	37	0	0	62	0.95
1522817--1522945	16	8.4	16	69	22	57	39	0	0	58	1.09
1522771--1522926	28	5.6	27	72	17	88	37	0	0	61	1.01
1522815--1522903	32	3.0	29	76	20	78	42	0	1	56	1.06
1522888--1522929	20	2.0	21	86	4	59	30	0	0	69	0.89
1523277--1523321	21	2.1	22	87	4	65	57	2	4	35	1.31
1525395--1525481	44	2.0	44	95	0	156	42	19	12	25	1.86
1528145--1528187	22	1.9	22	85	4	59	30	0	0	69	0.88
1528208--1528245	16	2.4	16	86	0	58	57	2	0	39	1.12
1528225--1528285	19	3.0	21	73	21	60	57	0	0	42	0.98
1528469--1528534	25	2.9	24	76	17	70	48	0	0	51	1.00
1528688--1528752	3	21.7	3	83	0	76	64	7	1	26	1.29
1528949--1529039	12	7.6	12	67	17	55	32	5	2	59	1.33
1528947--1529024	20	3.5	20	67	26	57	33	6	1	58	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1528997--1529041	21	2.2	20	84	11	56	33	0	2	64	1.06
1532431--1532463	17	1.9	17	93	0	57	57	3	0	39	1.14
1532462--1532513	23	2.2	23	86	6	68	44	0	0	55	0.99
1534324--1534354	2	15.5	2	100	0	62	51	0	0	48	1.00
1539993--1540030	19	2.0	20	89	5	60	52	0	0	47	1.00
1539993--1540065	15	4.2	18	72	22	66	52	0	0	47	1.00
1539998--1540067	19	4.0	19	74	24	73	52	0	0	47	1.00
1540011--1540085	32	2.3	32	88	6	107	50	2	0	46	1.15
1540349--1540402	3	17.3	3	84	7	72	37	0	0	62	0.95
1540351--1540409	21	2.7	22	84	7	59	37	0	0	62	0.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21