genome.fa.s8.2.7.7.80.10.50.1000.10.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   27   28   29   30   31   32   
          33   

This is table  10  of  33  ( 3942 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)
1352988--1353077	9	10.0	9	70	13	60	61	1	1	36	1.11
1352986--1353077	29	3.4	27	88	7	116	59	1	1	38	1.12
1352988--1353077	26	3.3	26	89	4	126	61	1	1	36	1.11
1359586--1359640	22	2.5	23	79	8	69	50	0	1	47	1.11
1360547--1360577	16	1.9	16	93	0	53	67	3	0	29	1.06
1360552--1360602	24	2.2	23	82	10	59	62	3	0	33	1.13
1361184--1361225	17	2.5	17	80	7	50	54	0	2	42	1.13
1362729--1362782	23	2.3	23	81	6	65	50	0	0	50	1.00
1364143--1364200	14	4.1	14	70	16	57	50	0	1	48	1.11
1368950--1368995	9	4.9	10	80	20	55	36	0	0	63	0.95
1368950--1369009	20	3.2	20	76	11	63	40	0	0	60	0.97
1368990--1369076	31	2.8	29	77	19	86	45	3	0	50	1.18
1369050--1369114	17	4.0	17	83	11	75	27	1	0	70	0.96
1369062--1369114	25	2.1	25	83	13	65	26	0	0	73	0.83
1369064--1369109	22	2.0	23	87	4	67	26	0	0	73	0.83
1369050--1369112	33	2.0	31	84	12	83	26	1	0	71	0.95
1369219--1369269	15	3.2	15	72	22	50	54	0	0	45	0.99
1369195--1369269	32	2.3	32	86	6	98	54	0	0	45	0.99
1369216--1369271	17	3.4	18	72	22	52	53	0	0	46	1.00
1369217--1369284	16	4.2	17	75	17	65	54	0	0	45	0.99
1376116--1376148	6	5.7	6	92	3	50	90	0	9	0	0.44
1376452--1376541	48	1.9	46	88	8	137	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376468--1376545	22	3.3	22	67	20	59	53	0	0	46	1.00
1376525--1376577	20	2.6	20	82	8	63	60	1	0	37	1.08
1376649--1376684	18	2.1	18	89	5	56	58	0	0	41	0.98
1377079--1377107	2	14.5	2	100	0	58	51	0	0	48	1.00
1377736--1377768	16	2.0	17	88	5	50	60	15	3	21	1.48
1377958--1378017	27	2.4	24	73	18	59	46	1	0	51	1.10
1377973--1378059	33	2.6	33	75	12	90	50	2	0	47	1.13
1378104--1378160	21	2.8	20	86	7	80	66	0	0	33	0.92
1378107--1378179	21	3.0	25	73	22	75	65	1	0	32	1.01
1378755--1378791	7	5.6	7	87	12	60	72	0	0	27	0.84
1378752--1378791	13	3.1	13	89	10	64	72	0	0	27	0.85
1378752--1378788	19	1.9	19	94	0	65	72	0	0	27	0.84
1382006--1382107	27	3.8	26	83	6	134	50	16	7	25	1.72
1383488--1383545	27	2.2	26	93	3	98	46	22	10	20	1.81
1383882--1383927	24	1.9	24	90	0	74	19	6	28	45	1.75
1386462--1386511	18	2.8	18	87	0	64	50	22	16	12	1.77
1388236--1388306	26	2.7	27	93	2	117	29	2	16	50	1.60
1391856--1391886	2	15.5	2	100	0	62	51	48	0	0	1.00
1396965--1397066	43	2.3	43	75	8	100	51	0	1	46	1.12
1397066--1397103	11	3.4	12	86	13	55	57	0	5	36	1.21
1397711--1397748	10	3.7	10	86	6	58	73	2	2	21	1.07
1397916--1397958	19	2.3	19	87	0	59	55	2	0	41	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398003--1398065	10	6.5	10	74	17	53	68	0	0	31	0.90
1398026--1398091	33	2.1	32	83	11	82	65	1	0	33	1.02
1398022--1398097	16	4.6	16	74	11	55	65	2	0	31	1.06
1398140--1398182	17	2.4	19	81	14	56	72	4	9	13	1.26
1398264--1398355	15	6.4	15	69	16	54	56	0	1	42	1.06
1398282--1398331	26	1.9	26	84	8	66	56	0	0	44	0.99
1398457--1398514	18	3.4	18	73	26	72	56	0	0	43	0.99
1398468--1398520	15	3.4	15	75	15	54	58	0	0	41	0.98
1400742--1400788	21	2.3	20	82	13	60	53	0	19	27	1.45
1400990--1401260	141	1.9	141	83	3	348	25	23	23	26	2.00
1405595--1405639	23	1.9	24	81	4	56	42	0	0	57	0.98
1406079--1406116	17	2.3	17	86	4	51	65	0	0	34	0.93
1406125--1406206	16	4.8	16	69	27	62	52	1	1	45	1.16
1406206--1406247	22	1.9	22	85	9	59	66	4	0	28	1.12
1407287--1407317	2	15.5	2	93	0	53	48	0	0	51	1.00
1407936--1407975	20	1.9	19	85	14	53	50	10	5	35	1.58
1408955--1409009	23	2.3	23	82	11	67	61	0	1	36	1.06
1410448--1410491	17	2.6	17	82	3	54	65	0	2	31	1.05
1410643--1410687	22	2.1	22	87	4	65	46	0	0	53	1.00
1410712--1410740	3	9.7	3	100	0	58	65	0	0	34	0.93
1411963--1412001	18	2.2	18	86	9	53	12	10	0	76	1.01
1411963--1412001	12	3.2	12	88	0	51	12	10	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1412133--1412189	29	2.0	28	86	6	78	43	0	1	54	1.10
1412491--1412550	28	2.1	30	84	12	81	41	1	5	51	1.33
1412634--1412698	23	2.8	22	75	9	58	35	3	6	55	1.40
1413500--1413755	74	3.5	73	80	6	272	54	11	2	32	1.49
1413489--1413775	74	3.9	74	77	7	264	53	11	2	32	1.51
1413765--1413794	14	2.1	14	100	0	60	70	6	0	23	1.11
1413770--1413822	20	2.7	20	68	11	54	66	7	0	26	1.18
1413944--1413992	14	3.5	14	76	18	57	57	2	2	38	1.22
1417864--1417917	26	2.2	24	83	12	65	46	0	1	51	1.11
1418356--1418403	21	2.4	19	80	16	53	35	8	4	52	1.51
1418836--1418863	2	14.0	2	100	0	56	50	0	0	50	1.00
1420902--1420937	2	18.0	2	100	0	72	50	0	0	50	1.00
1421539--1421571	2	16.5	2	100	0	66	48	0	0	51	1.00
1422366--1422421	28	1.9	30	85	7	80	55	0	3	41	1.17
1423883--1423911	6	4.8	6	100	0	58	65	0	17	17	1.27
1424135--1424176	2	21.5	2	95	4	77	50	0	0	50	1.00
1424298--1424335	3	12.7	3	94	0	67	31	2	0	65	1.06
1424302--1424341	9	4.4	9	90	0	53	30	5	0	65	1.14
1430879--1430917	13	3.2	13	89	7	55	61	0	0	38	0.96
1430883--1430928	13	3.3	14	84	9	58	65	0	0	34	0.93
1437330--1437354	2	12.5	2	100	0	50	52	0	48	0	1.00
1438880--1439026	38	3.9	38	81	2	152	31	23	12	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443540--1443614	38	2.0	38	86	0	105	29	22	13	34	1.92
1444018--1444053	17	2.1	17	89	0	54	44	0	0	55	0.99
1444034--1444092	29	2.1	27	84	12	82	50	0	0	49	1.00
1444072--1444114	22	2.0	22	90	9	70	60	0	0	39	0.97
1444038--1444103	29	2.2	29	81	7	80	54	0	0	45	0.99
1444100--1444135	18	2.0	18	88	0	54	44	0	2	52	1.15
1444955--1445003	19	2.6	19	83	0	71	48	0	2	48	1.12
1445374--1445430	28	2.2	25	84	9	69	38	0	0	61	0.96
1446351--1446391	11	3.9	11	90	9	59	34	0	0	65	0.93
1446347--1446402	10	5.7	10	73	12	53	33	0	1	64	1.04
1446381--1446433	16	3.2	18	69	17	51	37	0	7	54	1.29
1446454--1446514	31	2.0	29	84	12	79	42	1	0	55	1.09
1446488--1446618	28	5.0	26	74	15	92	38	2	1	58	1.20
1446535--1446627	22	4.3	21	69	18	59	34	2	2	61	1.20
1446502--1446604	10	11.3	9	68	20	63	38	1	1	57	1.21
1446735--1446781	19	2.6	18	80	6	58	51	0	2	46	1.13
1446783--1446820	17	2.2	18	90	4	60	47	0	0	52	1.00
1448362--1448386	13	1.9	13	100	0	50	32	0	0	68	0.90
1450732--1450780	25	2.0	25	84	7	66	48	0	0	51	1.00
1451517--1451548	14	2.1	16	88	11	50	53	3	0	43	1.16
1451523--1451618	15	6.6	15	69	19	60	42	0	1	56	1.06
1451523--1451603	24	3.4	23	75	11	83	43	0	1	55	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1451523--1451618	9	11.6	9	67	27	52	42	0	1	56	1.06
1451523--1451616	24	4.0	24	77	12	79	42	0	1	56	1.06
1453007--1453041	14	2.3	16	90	9	56	68	0	0	31	0.90
1454331--1454367	18	2.0	19	89	5	58	72	0	0	27	0.84
1454428--1454474	19	2.6	18	83	10	60	59	0	0	40	0.97
1454892--1454979	27	3.3	27	73	9	72	56	1	1	40	1.14
1455990--1456062	16	4.4	16	77	13	69	63	0	0	36	0.95
1455989--1456062	32	2.2	33	81	11	89	63	0	0	36	0.95
1456014--1456083	20	3.4	20	73	13	54	62	0	1	35	1.04
1464808--1464862	21	2.7	20	75	8	56	32	1	5	60	1.30

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   27   28   29   30   31   32   
          33